Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 35756.46 
• Atom Count: 2290 
• Residue Count: 306 
• Unique protein chains: 2

3ZS2

TyrB25,NMePheB26,LysB28,ProB29-insulin analogue crystal structure

• DOI: 10.2210/pdb3ZS2/pdb

• Classification: HORMONE
• Organism(s): Homo sapiens
• Mutation(s): 4 


• Deposited: 2011-06-21 Released: 2011-08-31 
• Deposition Author(s): Antolikova, E., Zakova, L., Turkenburg, J.P., Watson, C.J., Hanclova, I., Sanda, M., Cooper, A., Kraus, T., Brzozowski, A.M., Jiracek, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.97 Å
• R-Value Free: 0.252 
• R-Value Work: 0.193 

Literature

Non-Equivalent Role of Inter- and Intramolecular Hydrogen Bonds in the Insulin Dimer Interface.

Antolikova, E., Zakova, L., Turkenburg, J.P., Watson, C.J., Hanclova, I., Sanda, M., Cooper, A., Kraus, T., Brzozowski, A.M., Jiracek, J.A.

(2011) J.Biol.Chem. 286: 36968

• PubMed: 21880708 
• DOI: 10.1074/jbc.M111.265249
• Primary Citation of Related Structures:  
  3ZQR


• PubMed Abstract: 
  

Apart from its role in insulin receptor (IR) activation, the C terminus of the B-chain of insulin is also responsible for the formation of insulin dimers. The dimerization of insulin plays an important role in the endogenous delivery of the hormone and in the administration of insulin to patients. Here, we investigated insulin analogues with selective N-methylations of peptide bond amides at positions B24, B25, or B26 to delineate their structural and functional contribution to the dimer interface. All N-methylated analogues showed impaired binding affinities to IR, which suggests a direct IR-interacting role for the respective amide hydrogens. The dimerization capabilities of analogues were investigated by isothermal microcalorimetry. Selective N-methylations of B24, B25, or B26 amides resulted in reduced dimerization abilities compared with native insulin (K(d) = 8.8 μM). Interestingly, although the N-methylation in [NMeTyrB26]-insulin or [NMePheB24]-insulin resulted in K(d) values of 142 and 587 μM, respectively, the [NMePheB25]-insulin did not form dimers even at high concentrations. This effect may be attributed to the loss of intramolecular hydrogen bonding between NHB25 and COA19, which connects the B-chain β-strand to the core of the molecule. The release of the B-chain β-strand from this hydrogen bond lock may result in its higher mobility, thereby shifting solution equilibrium toward the monomeric state of the hormone. The study was complemented by analyses of two novel analogue crystal structures. All examined analogues crystallized only in the most stable R(6) form of insulin oligomers (even if the dimer interface was totally disrupted), confirming the role of R(6)-specific intra/intermolecular interactions for hexamer stability.

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Organizational Affiliation: 

Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, v.v.i., Flemingovo nám. 2, 166 10 Prague 6, Czech Republic.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
INSULIN A CHAIN	A, C, E, G, I, K	21	Homo sapiens	Mutation(s): 0  Gene Names: INS
Find proteins for P01308 (Homo sapiens) Go to Gene View: INS Go to UniProtKB:  P01308

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
INSULIN B CHAIN	B, D, F, H, J, L	30	Homo sapiens	Mutation(s): 4  Gene Names: INS
Find proteins for P01308 (Homo sapiens) Go to Gene View: INS Go to UniProtKB:  P01308

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	B, D	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CL	B, C	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
IPH	A, C, E, G, I, K	PHENOL C6 H6 O ISWSIDIOOBJBQZ-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MEA	B, D, F, H, J, L	L-PEPTIDE LINKING	C10 H13 N O2		PHE

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.97 Å
• R-Value Free: 0.252 
• R-Value Work: 0.193 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 57.660	α = 90.00
b = 62.170	β = 111.32
c = 46.678	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
MOLREP	phasing
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-06-21 
• Released Date: 2011-08-31 
• Deposition Author(s): Antolikova, E., Zakova, L., Turkenburg, J.P., Watson, C.J., Hanclova, I., Sanda, M., Cooper, A., Kraus, T., Brzozowski, A.M., Jiracek, J.A.

Revision History 

• Version 1.0: 2011-08-31
  Type: Initial release
• Version 1.1: 2011-09-21
  Type: Atomic model
• Version 1.2: 2011-10-26
  Type: Database references