Index to Course Material Index to Section 11 References
The insulin hexamer viewed down the 3-fold axis, indicating the position of the zinc ions and the three water molecules which coordinate with each of them.
A view of the hexamer perpendicular to the 3-fold axis
Here is the pdb file (203Kb). It contains no solvent molecules other than those waters which coordinate with each zinc ion. SCRIPT 1 renders the molecule as in the diagrams above, displaying each insulin monomer (one A + one B chain) in a different colour. Keep this RasMol window open for further scripts below.
Here are spacefilling and ribbon ribbon renditions of the hexamer.
The A chain consists of two anti-parallel stretches of imperfect alpha helices (A2 Ile - A8 Thr and A13 Leu - A19 Tyr) which are joined by a turn from A9 Ser to A12 Ser, stabilized by the A6-A11 disulphide. The A chain lies in a plane in which the N and C terminii are brought to the same side, bringing A2 Ile and A19 Tyr into van der Waals contact (see diagram).
The B chain consists of an alpha-helix (B9 Ser - B19 Cys) from which both N and C terminii residues extend. The glycine residues at B20 and B23 allow the chain to fold back on itself in an approximate V- shape, and this brings the C terminal residues B24 Phe and B26 Tyr into van der waals contact with B15 Leu and B11 Leu of the alpha-helix (see diagram).
The insulin fold is formed when interchain disulphides at A7 and A20 form interchain disulphides with the B chain cysteines at B7 and B19 respectively. The (A7-B7) disulphide is fully exposed on the surface of the molecule, whereas the (A20-B19) disulphide is part of the hydrophobic core (see next diagram). Burial of the intrachain (A6 - A11) disulphide and the non-polar side chains of A16 Leu, B11 Leu, B15 Leu, A2 Ile and B24 Phe provides the hydrophobic interior stabilising the fold. The N termini residues of the B chain are folded across and run anti-parallel to the turn in the A chain, giving rise to hydrogen bonding between A11 Leu and B4 Gln, A7 Cys and B5 His, and between A19 Tyr and B25 Phe. Further stability is also provided by a salt bridge between the polypeptide chains at A11 Cys and B4 Gln, between the A7 carbonyl oxygen and the B5 His side chain, and between the A19 carbonyl oxygen and the B25 back-bone nitrogen. Further stability is also provided by a salt bridge between B29 Lys and A4 Glu and between the positively charged B22 Arg side chain and the negatively charged A21 terminal carboxyl group (in molecule 1 only).
The insulin monomer viewed perpendicular to the 3-fold axis. The 2 interchain and 1 intrachain disulphides are shown in yellow.
To examine the porcine insulin dimer (2x[A+B]), either continue using the same hexamer PDB structure file and type
select *a,*b,*c,*dthen select a rendering option from the RasMol menu. Alternatively, download the crystal structure from which this hexamer was generated: 4ins (117Kb) [Bbk|BNL|ExP|Waw|Hal].
That these conformational variations are not simply due to crystal packing forces is demonstrated by molecular dynamics simulations performed in vacuo which highlight relative movement of the helices and flexibility of the chain termini (Kruger et al. , 1987; Caves et al., 1990). The T to R transition can be reproduced reversibly in the restricting environment of the crystal lattice, demonstrating the flexibility inherent in the insulin molecule (Bentley et al. , 1978). The T to R transition does not appear to be important in receptor binding since gamma-ethylnorleucine B6 insulin, which has limited ability to undergo the transition, still binds the insulin receptor with high affinity (Nakagawa and Tager, 1991).
Although there are variations in the molecule's conformation in the different crystals and between species, the insulin fold is essentially maintained. As the native insulin monomer will always form multimers at the concentrations necessary for crystal growth, a crystal structure analysis of the native monomeric molecule is impossible. However, despentapeptide insulin which is unable to form the hydrogen bonded beta-sheet between the monomers , does crystallize as a monomer (although there are still 2 molecules in the unit cell) and gives monoclinic crystals (Bi et al., 1983,1984). In the absence of metal ions native insulin crystallizes as a dimer. In some crystals the two-fold axis is exact and crystallographic (e.g. neutral pH cubic crystals; Dodson et al., 1978, and neutral pH tetragonal crystals; Cutfield et al., 1979) and the insulin monomer occupies the asymmetric unit. In other crystals the two-fold axis is approximate and non-crystallographic (e.g. low pH orthorhombic human insulin crystals; Derewenda et al., 1989a). The two B25 Phe side-chains respond to the symmetry of the dimer ; in a symmetrical dimer both are directed away from the two-fold axis, while in the asymmetrical dimer one side turns away and contacts its partner across the approximate axis. The conformation of the insulin molecule which persists in nearly all crystal forms and probably also in the circulation is referred to as molecule 2 (molecule 1, Chinese convention), its partner in the asymmetric dimer is referred to as molecule 1 (molecule 2, Chinese convention). In the dimerization of two insulin monomers the two B13 Glu side chains are directed away from each other and solvated, minimizing their repulsion (Badger et al., 1991). In hagfish insulin, which has an Asn residue at B13, the two molecules of the dimer are identical and resemble molecule 2 of the porcine dimer (Cutfield et al., 1974; Peterson et al., 1975).
In the presence of zinc ions, three identical insulin dimers assemble into a hexamer in which each of two zinc ions lies on a three-fold axis and resides in a distorted octahedral ligand field co-ordinated by three B10 His imidazolyl groups and by three water molecules. The hexamer is stabilized by hydrophobic interactions between B1 Phe, B14 Ala, B17 Leu, A13 Leu and B18 Val residues. The local two-fold axis within each dimer is perpendicular (or approximately so) and intersects the three-fold axis. X-ray crystallographic studies of porcine 2 zinc insulin (Blundell et al.,1972a) showed that the hexamer is torus shaped (50 Å in diameter by 35 Å high) and that the two zinc ions lie 17 Å apart on either side of the hexamer centre, on the three-fold axis which traverses the central cavity. In the porcine 2Zn insulin crystal (T6) the dimer is the asymmetric unit (Baker et al., 1988).
The insulin hexamer is toroidal, highly stable and has a polar surface, making it ideal for crystal formation. In pancreatic beta-cells (which have a high content of zinc), mature secretory granules contain insulin which forms a dense array of 50 Å units with packing similar to that found in the crystalline hexamer (Greider et al., 1969), and it has been proposed that the 2 Zn hexamer is the storage form of insulin (Blundell et al., 1972a). Crystallization within the storage granule seems to serve two purposes, firstly to act as an efficient store of insulin and secondly to protect insulin molecules from proteolytic processing.
It has been shown that anions induce the T to R transition at residues B1-B8 of the insulin molecule (Bentley et al., 1975; Renscheidt et al., 1984; Kaarlsholm et al, 1989). Transformation efficiency follows the Hoffmeister lyotropic series (Harding et al, 1966, De Graaf et al., 1981) and some residues move by as much as 20-25 Å (Smith et al., 1984 ; Derewenda et al., 1989). Chloride ion concentrations above 6% have a dramatic effect on the insulin hexamer, inducing the T to R transition in three molecules (molecule 1), which now form a three-fold symmetrical trimer, out of the six, and causing a cleft to appear in these molecules due to movement of the (A7-B7) disulphide (molecule 2 remains in the 2 Zn insulin conformation). The movement apart of the A-chain and the B-chain C-terminii breaks the hydrogen bond between A19 Tyr and B25 Phe and exposes the hydrophobic core residues. The approximate two- fold symmetry between the dimers in the 2Zn hexamer is lost, however the axial symmetry relating the monomers in the dimer is preserved. At one face of the hexamer, a single octahedral zinc site coordinated by three B10 His residues (of molecule 2) and three water molecules is retained. At the other face of the hexamer the helical conformation of the B1-B8 segments of the other three B-chains brings the B5 his (from molecule 1) and B10 His (from molecule 1) rings from adjacent dimers together, creating two types of additional zinc sites. At these new faces, the B10 His side chain can exist in two distinct orientations. In one orientation the symmetrically related B10 His side chains and a chloride ion (or water molecule) coordinate a zinc ion on the 3-fold axis. Alternatively, the B10 His side chains may be rotated about the C-alpha-C-beta bond to bring them into close proximity with the imidazole ring of B5 His from the adjacent dimer, creating three identical off-axial sites. Each off-axial zinc ion is coordinated by two chloride ions (or water molecules) and two histidyls (B5 His and B10 His). The off-axial sites are not always fully occupied (Smith et al., 1984) but at high zinc concentrations 4 Zn hexamers can be formed (Schlichtkrull, 1958). In the 4 Zn (T3,R3) porcine and human insulin crystals, the dimer is still the asymmetric unit (Bentley et al., 1976, Smith et al., 1984). The 2 Zn to 4 Zn crystal transformation can be elicited by soaking the crystalline 2 Zn hexamer in high concentrations of anions without distorting the crystal lattice. If the chloride ion concentration is reduced below 6%, the 4 Zn (T3,R3) crystal reverts back to the 2 Zn (T6) structure (Bentley et al., 1978). Alternatively, the 4 Zn hexamer can be crystallised directly.
Phenol has also been shown to induce the 2Zn to 4Zn transformation in solution (Wollmer et al., 1987), but 2Zn insulin crystals do not survive soaking in phenol without cracking. However, crystallization in the presence of phenol at levels of 0.5%, causes the B-chain helices of all insulin molecules to extend from B1 to B20, giving the dimers approximate two-fold symmetry. Each phenol binds in a hydrophobic cavity created by the packing of the B1 to B8 helix against the A chain of the three-fold related dimer. More specifically, the phenol hydroxyl group hydrogen bonds to the (A6-A11) cysteine bridge and the aromatic ring makes van der Waals contact with B5 His of the adjacent dimer, blocking off the axial zinc-binding sites. The resulting 2 Zn (R6) crystals are monoclinic with a hexamer in the asymmetric unit (Derewenda et al., 1989a). Phenol is commonly used as a preservative in commercial insulin preparations at a level of approximately 0.2%, and interestingly such levels can occasionally convert rhombohedral crystals to the monoclinic form (Brange, 1987).
When insulin is mixed with protamine in the presence of zinc, phenol or mcresol, a precipitate is formed which can be converted to tetragonal crystals (Krayenbuhl and Rosenberg, 1946). Chemical analysis indicates the presence of two zinc ions and 22 phenol molecules per hexamer and one protamine per 8.5 insulin monomers. X-ray studies reveal that the hexamer in these crystals is symmetric, with three two-fold axes as is the case for monoclinic crystals (Derewenda et al., 1989b).
The reluctance of native insulin to form hexamers in the absence of zinc ions suggests that there are unfavourable interactions which are overcome by the zinc coordination to B10 His. The repulsive potential of the six B13 Glu carboxylate groups at the centre of the insulin hexamer has been predicted to limit the formation of zinc-free insulin hexamers at neutral pH (Blundell et al.,1972 ; Coffman and Dunn, 1988 ; Baker et al., 1988). In the 2 Zn hexamer the B13 Glu side chains are arranged as three hydrogen-bonded pairs, an arrangement which reduces their electrostatic repulsion at the expense of the energy required to protonate half of the carboxylates. Solution studies including osmometry (Roy et al., 1989; Hansen 1991), volume exclusion chromatography and circular dichroism studies (Wollmer et al., 1989) have established the existence of a stable metal-free hexamer when B13 Glu is mutated to Gln. X-ray analysis of the zinc-free B13 Gln insulin hexamer reveals that the glutamine side-chains are entirely hydrated and make no hydrogen-bonding contacts (Bentley et al., 1992). Surprisingly the organisation of the zinc-free hexamer is T3,R3 in the absence of any anions ; either the B13 Gln mutation favours the R state or the sulphate ion stabilizes the B1 - B8 helix (ammonium sulphate is not used for 2Zn hexamer growth as a change in pH is sufficient to cause supersaturation). Inspection of known insulin sequences shows that a carboxylic acid residue (Glu or Asp) at B13 is almost universal in all zinc binding insulins (Hallden et al., 1986), the exception being the unusual Atlantic Hagfish insulin where B13 is an asparagine and which is thought not to form hexamers (Peterson et al., 1975 ; Cutfield et al., 1979), suggesting that it has important structural or functional properties. It has been proposed that the function of B13 acidic groups is to drive apart the hexamer as soon as the stabilizing zinc ions diffuse away upon expulsion of the hexamer from the beta-cell (Bentley et al., 1992). However, B13 Glu is conserved in Guinea Pig insulin which is known not to hexamerise (Zimmerman and Yip, 1974), suggesting that its role may not be limited to hexamer assembly. Commensurate with this is the 80% fall in potency of B13 Gln insulin in the free fat cell assay (Marki et al., 1979) and a fall of 60% in the mouse blood glucose assay (Markussen et al., 1987a).
The work of Schlichtkrull (1956) on the stoichiometries of divalent metal ion binding in crystalline rhombohedral insulin hexamers gave the first indication for the presence of a third, high affinity metal binding site within the insulin hexamer. During the initial X-ray structure determination of the 2 Zn hexamer, isomorphous replacement studies located the extra metal binding site to the centre of the hexamer (Adams et al., 1967) and further studies showed that the B13 Glu residues specifically bound metal (Blundell et al., 1972; Emdin et al., 1980). NMR experiments involving metal ion substitution established that the 2 Zn hexamer is a calcium binding protein (Sudmeier et al., 1981). A variety of physico-biochemical studies have since shown that one calcium ion binds at the centre of each hexamer in a cage formed by the six B13 Glu carboxylates with a dissociation constant of 80 microM (Sudmeier et al., 1981 ; Storm and Dunn, 1985 ; Alameda et al., 1985 ; Kaarsholm and Dunn, 1987 ; Dunn et al., 1987 ; Palmieri et al. 1988 ; Coffmann and Dunn, 1988). Substitution of a calcium ion into the metal-free B13 Glu cavity disrupts the intra-dimer Glu-Glu hydrogen-bonding interaction, and the single ion has to move rapidly between the three symmetry related sites in order to coordinate the covalently seperate molecules. In this respect the calcium binding site of the 2 Zn hexamer is quite unlike any other known protein structure (Hill et al., 1991). The presence of calcium at the centre of the hexamer has a stabilising effect by eliminating the coulombic effects whih would otherwise arise from ionisation of the B13 carboxyls in its absence. It has been shown that pancreatic storage granules contain high concentrations of Ca2+ in addition to Zn2+ (Herman et al., 1973), and their physiological role is probably to facilitate hexamer formation from proinsulin and stabilization of the complex during storage.
Several mutant insulins have been crystallised with recipies that differ from those traditionally used, probably owing to their altered stability and solubility (Xiao et al., 1992).
Raj Gill, John Walshaw, John Kenney
Last updated 3rd Jul '96