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4.9: General Structural Features that Modulate Ligand Activity

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    There are many ways in which ligand affinity may be perturbed (Figure 4.25). It is convenient to divide these into two groups, referred to as distal and proximal effects.163 Proximal effects are associated with the stereochemistry of the metalloporphyrinato moiety and the coordination of the axial base, and thus their influence on O2 and CO affinity is indirect. Distal effects pertain to noncovalent interactions of the metal-porphyrinato skeleton and the sixth ligand (O2, CO, etc.) with neighboring solvent molecules, with substituents, such as pickets or caps, on the porphyrin, and with the surrounding protein chain. The distal groups that hover over the O2-binding site engender the most important distal effects. For convenience, the effects of crystal packing and the protein matrix on porphyrin conformation will be discussed among the proximal effects, although as nonbonded interactions they properly are distal effects.

    Figure 4.25 - Structural parameters and features that determine the affinity of oxygen carriers.

    To a first approximation, the effects of substituents on the porphyrin ring, as transmitted through bonds to the metal center, do not perturb the ligand binding properties as much as do distal effects.170 Thus substituents, such as vinyl and propionic-acid groups on protoporphyrin IX and o-pivalamidophenyl pickets, are ignored; one porphyrin is much like another. At the end of this subsection the various ways ligand affinity may be modulated will be summarized in an augmented version of Figure 4.3.

    Proximal Effects

    Few molecules have had their conformational properties characterized as exhaustively as have metalloporphyrins.

    a. Porphyrin Conformation and M-Np Separations

    The cyclic aromatic 24-atom porphyrinato skeleton offers a tightly constrained metal-binding site. The conformation of least strain is planar, and the radius of the hole of the dianion is close to 2.00 Å,110 leading to metal-porphyrinato nitrogen-atom separations, M-Np, of 2.00 Å if the metal is centered in the square plane defined by the four porphyrinato nitrogen atoms. Small deviations from planarity are generally observed and attributed to crystal packing effects; large deviations may be induced by bulky substituents on the porphyrin skeleton, especially at the meso positions, by the crystal matrix,65 or by the highly anisotropic protein matrix. The 2.00 Å radius hole neatly accommodates low-spin (S = 0) and intermediatespin (S = 1) iron(II), low-spin (S = \(\frac{1}{2}\)) iron(III), and cobalt(II) and cobalt(III) ions.91* With few exceptions the metal is centered in or above the central hole for mononuclear porphyrin species; only rarely do M-Np bonds show a significant (though still small) scatter about their mean value.

    * In order to accommodate smaller ions, such as nickel(II), the porphyrin skeleton may contract by ruffling, with little loss of aromaticity; like a pleated skirt the pyrrole rings rotate alternately clockwise and counterclockwise about their respective M-Np vectors. This distortion leaves the four porphyrinato nitrogen atoms, Np, still coplanar. Alternatively, the porphyrin skeleton may buckle to give a saddle conformation; the Np atoms may acquire a small tetrahedral distortion in this process. M-Np bonds as short as 1.92 Å have been observed. Metals with one or two electrons in their 3dx2-y2 orbital have a radius larger than 2.00 Å. In order to accommodate them in the plane of the porphyrin, the porphyrin skeleton expands. M-Np separations as long as 2.07 Å may occur with the metal still centered in the plane of the Np atoms.110

    b. M • • • Porph Displacement

    For five-coordinate complexes the magnitude of the displacement of the metal from the plane of the four nitrogen atoms, M • • • porph, is a consequence of the electronic configuration of ML5 complexes. Of course, the effect is augmented if the 3dx2-y2 orbital (directed along M-Np bonds, Figure 4.16) is occupied. Compare a displacement of 0.14 Å for Co(TPP)(1,2-Me2Im) (no 3dx2-y2 occupancy)111 with 0.43 Å for Fe(PF)(2-MeIm) (3dx2-y2 occupied).169 For six-coordinate complexes where the two axial ligands, L1 and L2, are different, the M • • • porph displacement usually reflects relative trans influences.

    Generally, displacement of the metal from the plane of the porphyrinatonitrogen atoms is within 0.04 Å of the displacement from the 24-atom mean plane of the entire porphyrin skeleton. On occasions this second displacement may be much larger, for example in Fe(TPP)(2-MeIm), where it is 0.15 Å larger110 than it is for Fe(PF)(2-MeIm). This effect is called doming, and it is usually attributed to crystal packing forces. Interaction of the porphyrin with protein side chains leads to considerable doming or folding of the heme in vertebrate hemoglobins.

    c. M-L Separations

    The metal-axial ligand separations, M-L (when more than one, L1 denotes the heterocyclic axial base), are dependent on the nature of the ligand, L. When L1 and L2 are different, the M-L separations are sensitive to the relative trans influences of L1 and L2 as well as to steric factors. For example, for Fe(TPP)(1-Melm)2, the Fe—NIm bond length is 2.016(5) Å,110 whereas for Fe(TPP)(1-Melm)(NO) it is 2.180(4) Å.111For sterically active ligands, such as 2-methylimidazole compared to 1-methylimidazole (4.34), the longer Co—NIm bond occurs for the 2-Melm ligand because of steric clash between the 2-methyl group and the porphyrin.111It is possible that combinations of intrinsic bonding and steric factors may give rise to a double minimum and two accessible axial ligand conformations (Figure 4.26). This situation seems to occur in the solid state for Fe(PF)(2-Melm)(O2)•EtOH, where a short Fe—NIm and a long Fe—O bond are observed both from the structure revealed by single-crystal x-ray diffraction methods and by EXAFS data. On the other hand, for solvate-free Fe(PF)(2-MeIm)(O2) and for Fe(PF)(1,2-Me2Im)(O2), the EXAFS patterns are interpreted in terms of a short Fe—O and long Fe—Im bond.171

    Figure 4.26 - Two arrangements of axial ligands. The right-hand side features a short L2 and long L1; the left-hand side the opposite.

    d. The Angle \(\phi\)

    This parameter is the minimum angle that the plane of the axial base (e.g., pyridine, substituted imidazole, etc.) makes with a plane defined by the Np, M, and L1 atoms (Figure 4.25).65 If there are two axial ligands, e.g., 1-methylimidazole and O2, then, as before, the angle the axial base makes is denoted \(\phi_{1}\) and the other angle \(\phi_{2}\). For a linear CO ligand bound perpendicularly to the porphyrin plane, \(\phi_{2}\) is undefined. Note that the orientation of the second ligand is influenced by distal effects.

    When \(\phi\) = 0, the axial base eclipses a pair of M-Np bonds; contacts with the porphyrin are maximized. When \(\phi\) = 45°, contacts are minimized. Unless the axial base has a 2-substituent, however, the contacts are not excessively close for any value of \(\phi\). With a 2-methyl substituent, the contacts are sufficiently severe that the M-NL1 vector is no longer perpendicular to the porphyrin plane, and the imidazole group is rotated so that the M-NL1 vector no longer approximately bisects the imidazole C—N—C bond angle, as illustrated Figure 4.25.110,172

    Distal Effects

    Distal effects arise from noncovalent interactions of the coordinated dioxygen, carbon monoxide, or other ligand with its surroundings. The protein matrix, the pickets, and the caps are functionally equivalent to an anisotropic solvent matrix that contains a variety of solutes. The limits of this simplification are illustrated in the following example. The electronically similar cobalt meso-, deutero-, and protoporphyrin IX complexes bind dioxygen with similar affinities under identical solvent conditions. When they are embedded in globin, larger differences in affinity and changes in cooperativity are observed.170 These effects are attributed to the slightly different nestling of the porphyrin molecules in the cleft in hemoglobin or, in the generalization introduced, to slightly different solvation effects.

    Interaction of the coordinated O2 or CO molecule with solvent molecules or with the protein has a profound influence on kinetics and thermodynamics (see Figure 4.24, and Tables 4.2 and 4.5). As discussed earlier, there is accumulation of negative charge on the dioxygen ligand. The possibility then arises for stabilization of coordination through hydrogen bonding or dipolar interactions with solute molecules,175 porphyrin substituents (such as amide groups in the picket-fence porphyrins176 and some species of strapped porphyrins161), or with protein residues* (such as histidine).167,177-179

    Destabilization of coordinated ligands and lowered affinity can result if the coordinated ligand is unable, through steric clash, to achieve its optimum stereochemistry or if the closest neighboring groups are electronegative, as are the ether and ester linkages on capped porphyrins.31,180 We will describe in detail in the next subsection (III.C) the fascinating variety of means by which ligand binding is modulated by distal amino-acid residues.

    * For Glycera CoMbO2 no change in EPR parameters occurs on substituting D2O for H2O.168 No hydrogen bond between O2 and a distal group comparable in strength to that in whale CoMbO2 was inferred.

    Approximate Contribution of Proximal and Distal Effects to Ligand Affinity

    Dissimilar systems may show similar affinities for a ligand as a result of a different mix of the proximal and distal effects enumerated above. These effects are not all of equal magnitude, and an attempt is made here to show the increment in free energy that occurs if the effect is manifest in the deoxy or liganded state of Figure 4.3. Increasing the free energy of the deoxy state while holding that of the liganded state constant leads to an increase in affinity. The reference state is gaseous Fe(TPP)(1-MeIm). The magnitude and sign of these effects are shown in Figure 4.27. For the coordination of alkylisocyanide molecules to hemoglobin, the steric effects of different alkyl groups have been quantified.35 Lowered affinity occurs with increasing alkyl chain length, with the exception of methyl isocyanide.

    Figure 4.27 - Proximal and distal effects on the ligand affinities.

    4.9: General Structural Features that Modulate Ligand Activity is shared under a not declared license and was authored, remixed, and/or curated by LibreTexts.

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