Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | 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 - A3B3C3D3 

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

Macromolecule Content

• Total Structure Weight: 12.09 kDa 
• Atom Count: 823 
• Modelled Residue Count: 101 
• Deposited Residue Count: 102 
• Unique protein chains: 2

4GBK

Crystal structure of aspart insulin at pH 8.5

• PDB DOI: 10.2210/pdb4GBK/pdb

• Classification: HORMONE
• Organism(s): Homo sapiens
• Mutation(s): Yes 


• Deposited: 2012-07-27 Released: 2013-06-12 
• Deposition Author(s): Lima, L.M.T.R., Favero-Retto, M.P., Palmieri, L.C.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.266 
• R-Value Work: 0.198 
• R-Value Observed: 0.201 

Literature

A T3R3 hexamer of the human insulin variant B28Asp.

Palmieri, L.C., Favero-Retto, M.P., Lourenco, D., Lima, L.M.

(2013) Biophys Chem 173: 1-7

• PubMed: 23428413 
• DOI: 10.1016/j.bpc.2013.01.003
• Primary Citation of Related Structures:  
  4GBC, 4GBI, 4GBK, 4GBL, 4GBN


• PubMed Abstract: 
  

Insulin shows a complex equilibrium between monomers and hexamers, involving varying conformers and association states. We sought to perform a structural characterization of the fast-acting human insulin variant B28Asp ("aspart"). Small-angle X-ray scattering measurements reveal similar globular behavior in both the aspart and regular human insulin, with a Rg of 19Å and a Dmax of approximately 50Å, indicating similar mean quaternary assembly distribution. Crystallographic assays revealed a T3R3 assembly of the aspart insulin formed by the TR dimer in the asymmetric unit, with all the first 8 residues of the B chain in the R-state monomer in helical conformation and the participation of its B3Asn in the stabilization of the hexamer. Our data provide access to novel structural information on aspart insulin such as an aspart insulin dimer in solution, the aspart insulin in T conformation and a pure R-state conformer establishing a T3R3 assembly, providing further insight on the stepwise conformational transition and assembly of this fast-insulin.

---

Organizational Affiliation: 

School of Pharmacy, Federal University of Rio de Janeiro - UFRJ. CCS, Bss34, Ilha do Fundão, 21941-590, Rio de Janeiro, RJ, Brazil.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin A chain	A, C	21	Homo sapiens	Mutation(s): 0  Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens) Explore P01308  Go to UniProtKB:  P01308
PHAROS:  P01308

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin B chain	B, D	30	Homo sapiens	Mutation(s): 1  Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens) Explore P01308  Go to UniProtKB:  P01308
PHAROS:  P01308

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CRS	E [auth A], H [auth B]	M-CRESOL C7 H8 O RLSSMJSEOOYNOY-UHFFFAOYSA-N
ZN	F [auth B], I [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CL	G [auth B], J [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.266 
• R-Value Work: 0.198 
• R-Value Observed: 0.201 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.5	α = 90
b = 77.5	β = 90
c = 37.6	γ = 120

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
Blu-Ice	data collection
MAR345	data collection

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-07-27 
• Released Date: 2013-06-12 
Deposition Author(s): Lima, L.M.T.R., Favero-Retto, M.P., Palmieri, L.C.

Revision History  

• Version 1.0: 2013-06-12
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2018-08-22
  Changes: Data collection, Database references, Structure summary