A structural comparison of human serum transferrin and human lactoferrin
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- Wally, J. & Buchanan, S.K. Biometals (2007) 20: 249. doi:10.1007/s10534-006-9062-7
The transferrins are a family of proteins that bind free iron in the blood and bodily fluids. Serum transferrins function to deliver iron to cells via a receptor-mediated endocytotic process as well as to remove toxic free iron from the blood and to provide an anti-bacterial, low-iron environment. Lactoferrins (found in bodily secretions such as milk) are only known to have an anti-bacterial function, via their ability to tightly bind free iron even at low pH, and have no known transport function. Though these proteins keep the level of free iron low, pathogenic bacteria are able to thrive by obtaining iron from their host via expression of outer membrane proteins that can bind to and remove iron from host proteins, including both serum transferrin and lactoferrin. Furthermore, even though human serum transferrin and lactoferrin are quite similar in sequence and structure, and coordinate iron in the same manner, they differ in their affinities for iron as well as their receptor binding properties: the human transferrin receptor only binds serum transferrin, and two distinct bacterial transport systems are used to capture iron from serum transferrin and lactoferrin. Comparison of the recently solved crystal structure of iron-free human serum transferrin to that of human lactoferrin provides insight into these differences.
KeywordsTransferrin Lactoferrin Iron transport Human transferrin receptor Bacterial transferrin receptor
The crystal structures of transferrin family members across all species that have been solved to date are quite similar, which is not surprising since TFs, LTFs and oTFs share 60–80% sequence identity (Anderson et al. 1989; Kurokawa et al. 1995, 1999; Rawas et al. 1996, 1997; Moore et al. 1997; Jeffrey et al. 1998; Jameson et al. 1999; Khan et al. 2001; Hall et al. 2002; Kumar et al. 2002; Guha Thakurta et al. 2003; Thakurta et al. 2004; Wally et al. 2006). All structures consist of two homologous lobes (termed the N- and C-lobes) connected by a short peptide linker, which is helical in LTFs and unstructured in TFs and oTFs. Each lobe can be further divided into two subdomains (N1 and N2 in the N-lobe and C1 and C2 in the C-lobe) that form a cleft inside of which the iron is bound. The iron-coordinating residues in the N- and C-lobes of transferrin family members are strictly conserved, consisting of an aspartic acid, two tyrosines and a histidine, as well as an arginine that coordinates a requisite anion. Based upon comparisons of transferrins whose iron-bound and iron-free structures are known, it is thought that in each lobe, the subdomains move as rigid bodies around a few hinge residues that lie between the subdomains, opening and twisting as iron is released and closing as iron is bound (Anderson et al. 1989; Kurokawa et al. 1995, 1999; Jeffrey et al. 1998; MacGillivray et al. 1998; Jameson et al. 1999; Guha Thakurta et al. 2003; Thakurta et al. 2004).
Pathogenic bacteria make separate transport systems to acquire iron from hTF and human LTF, consisting of an integral outer membrane receptor/transporter (TbpA, LbpA), a lipid anchored co-receptor (TbpB, LbpB) on the cell surface, and several other proteins in the periplasm and inner membrane. The TbpA/TbpB transport system can only acquire iron from human transferrin, whereas the LbpA/LbpB system can only use iron from lactoferrin. This need for bacteria to synthesize and express two distinct transport systems indicates that either the structures of hTF and human LTF are sufficiently different, and/or the requirements for removing iron from hTF and LTF by the bacterial receptors differ. We have recently solved the crystal structure of iron-free hTF (Wally et al. 2006). Comparison of it to the structure of human LTF gives some insight into the functional differences between these proteins and their receptor binding properties.
Structural comparison of human serum transferrin and human lactoferrin
The difference in the pH-dependent iron release for the N- and C-lobes of hTF has been postulated to arise from the dilysine trigger in the N-lobe and the triad of charged residues in the C-lobe. However, the structure of iron-free hTF revealed another striking distinction between the two lobes of hTF (Baker and Baker 2004; Wally et al. 2006). The N- and C-lobes of hTF differ in the secondary structure of the regions surrounding the hinge residues: in the N-lobe the hinge residues lie adjacent to a 2-stranded β-sheet as found in other transferrin family members, including LTF. In the C-lobe of hTF this region is unstructured, whereas the C-lobe of LTF has a 2-stranded β-sheet analogous to the hTF and LTF N-lobe structures. This structural difference between the hTF N- and C-lobes may contribute to their individual iron binding properties via a difference in the rigidity of the lobes; likewise, this structural difference between the C-lobes of hTF and LTF may play a role in the distinct iron affinities of the two molecules.
Other than the linker between the lobes, another important consideration is the nature of the inter-lobe contact. All TFs have a relatively small amount of buried surface area between the lobes, usually around 400-600 Å2. Inter-lobe contacts are strengthened in iron-free hTF by two additional salt bridges, formed between Arg308 in the N1 subdomain and Asp376 in the C1 subdomain, and between Asp240 in the N2 subdomain and Arg678 in the C1 domain (Fig. 4) (Wally et al. 2006). Arg678 is the penultimate residue in hTF and lies at the end of the C-terminal helix, which is positioned between the N- and C-lobes. Interestingly, only a single inter-lobe salt bridge is observed between the lobes of LTF, in both the iron-bound and iron-free forms, between Asp315 in the N2 subdomain and Lys386 in the C1 subdomain. This salt bridge makes a similar connection as seen in hTF (Arg308–Asp376), linking helix 2 of the C-lobe with the loop between β-sheet k and helix 10 of the N-lobe, though at different locations on the loop and helix 2 (secondary structural designations as in Wally et al. 2006). No salt bridges are observed between the N-lobe and the C-terminal helix of LTF. These differences in inter-lobe contacts may restrict mobility of the N- and C-lobes, possibly influencing iron affinities and receptor (both human and bacterial) recognition.
Comparison of the tertiary structure of iron-free hTF to that of iron-bound rabbit TF suggested that as the lobes of hTF open and close, the orientation of the lobes relative to one another does not change. The N1 and C1 subdomains of hTF superimpose exactly on the N1 and C1 subdomains of rabbit TF (Wally et al. 2006). However, comparison of the tertiary structure of iron-free hTF to that of iron-bound human LTF indicates that the overall orientation of the lobes of these two molecules is different (Fig. 3). When aligning the N1 subdomain of hTF on the N1 subdomain of LTF, the C1 subdomains of hTF and LTF do not superimpose. The C-lobe of LTF is rotated toward the N-lobe by about 8.5° as compared to the C-lobe of hTF, though the position of the C-terminal helix in both molecules is identical. This tertiary structural difference between hTF and LTF is likely due to the helical inter-lobe linker in LTF, which is shorter than the unstructured inter-lobe linker in hTF and more closely associated with the lobes of LTF, as well as the differences in inter-lobe interactions already described.
Transferrin receptor binding
Serum transferrin functions to transport iron in the bloodstream to cells and deliver the iron via interaction with the TFR. After binding, the hTF–TFR complex is internalized and exposed to the low pH environment of the endosome. At this acidic pH, hTF releases its iron which is then transported into the cell via Nramp2 (Fleming et al. 1998). The entire hTF–TFR complex is then recycled to the cell surface, where at neutral pH, the affinity of the TFR for iron-free hTF is low, so the hTF is released. Recent cryo-electron microscopic models of both iron-free and iron-bound hTF bound to a soluble form of the TFR (Cheng et al. 2004, 2005), as well as many studies of receptor binding have shed light on the nature of the interaction between hTF and the TFR (Fig. 1). In the iron-bound hTF–TFR cryo-electron microscopy model, the dimeric TFR interacts with two molecules of hTF, with interactions made between the C1 subdomain and the N-lobe of hTF. The C-lobe sits above the N-lobe, and the N-lobe is close to the membrane. However, fitting of the lobes of hTF (the authors used the known human iron-bound N-lobe structure and the rabbit iron-bound C-lobe structure) in the electron density necessitated a 9 Å separation of the two lobes relative to one another in the full-length hTF structure. This feature, along with some conflicting evidence about which residues interact with the TFR (Giannetti et al. 2003, 2005; Liu et al. 2003; Teh et al. 2005; Xu et al. 2005), has led to the suggestion that conformational changes must take place in hTF and/or the TFR upon complex formation, which could not be seen within the resolution of the electron density maps (Wally et al. 2006).
The ability of hTF to undergo a conformational change upon binding to the TFR might be a unique requirement for binding. It is possible that the inability of LTF to undergo a similar conformational change might explain its inability to bind to the TFR, since analysis of the residues that might interact with the TFR in hTF and LTF does not suggest any obvious differences that account for the lack of TFR binding by LTF (Wally et al. 2006), and analyses of sequence differences in the context of tertiary structure fail to reveal any obvious differences between hTF and LTF. Furthermore, the structures of the N- and C-lobes of hTF and LTF overall are very similar (for the iron-free structures, the Cα r.m.s.d. is 0.91 Å for the N-lobe, 0.83 Å for the C1 subdomain and 0.69 Å for the C2 subdomain). However, comparison of the two structures (Fig. 3) suggests that the relative orientations of the lobes in hTF and LTF might be important, in that it would position these residues in different relative locations in LTF as compared to hTF, which might be incompatible with TFR binding. Details of the amino acids of hTF that interact with the TFR are currently limited by the lack of a high-resolution structure of the hTF–TFR complex.
The interactions between the two lobes of hTF are likely critical in allowing the conformational change that is suggested to occur in hTF upon binding to the TFR. Therefore differences in these interactions between hTF and LTF might explain the lack of binding of LTF to the TFR and the lack of iron delivery to cells by LTF. Both hTF and LTF have a relatively small area of hydrophobic contact between their lobes (for the iron-free proteins, 552 Å2 for hTF and 660 Å2 for LTF) and contain a similarly located salt bridge that links the N1 and C1 subdomains in each protein. However, for hTF the linker is unstructured and extended, and is bounded by two inter-subdomain disulfide bonds. For LTF, the linker is helical and more closely associated with the lobes, and has a salt bridge to the C1 subdomain. In addition, hTF has an additional salt bridge that connects the N2 subdomain to the C1 subdomain via the C-terminal helix, that is absent in LTF. Taken together, this analysis suggests that the inter-lobe interactions in LTF may be tighter as compared to hTF, with hTF having more flexibility between its lobes as facilitated by its flexible linker and stronger connection between its C-terminal helix and N-lobe. This helix has previously been suggested to be important for inter-lobe communication (Jameson et al. 1999), and could insert further between the lobes during a conformational change. Furthermore, this differential interaction between the lobes of hTF and LTF might be related to their differential iron affinities, by affecting the cooperativity of iron binding between the lobes, as has also been previously suggested (Baker and Baker 2004). Further analyses of these salt bridging and disulfide bonding residues are warranted.
Bacterial transferrin and lactoferrin receptors
Pathogenic bacteria express outer membrane protein complexes that allow them to interact with host iron-containing proteins and to extract the iron from these proteins. In addition to expressing transport systems for both TF and LTF, transporters for other host proteins, including hemoglobin, have been identified (Rohde and Dyer 2003). The TF and LTF outer membrane receptors are predicted to be 22-stranded β-barrel type integral outer membrane proteins of (100 kDa, having N-terminal plug domains which are thought to lie within the barrel as in other TonB-dependent outer membrane transporters (Boulton et al. 2000; Oakhill et al. 2005) based upon their sequence homology to other proteins of this type (Wiener 2005) (Fig. 1). The outer membrane receptor (TbpA or LbpA) is thought to bind to a host protein (transferrin or lactoferrin), extract the iron, and transport it into the periplasm, explaining the observation that neisserial mutants lacking TbpA are unable to internalize iron from TF (Cornelissen et al. 1992). The energy for iron transport (and possibly iron removal from transferin or lactoferrin) is thought to be derived from the TonB–ExbB–ExbD complex that resides in the bacterial inner membrane, since TbpA and LbpA both contain a specific amino acid sequence located near their N-terminus (the TonB box) that has been identified in all other integral outer membrane transport proteins. TonB is thought to have an extended structure that spans the periplasm, allowing interaction of its C-terminal domain with the TonB box (Pawelek et al. 2006; Shultis et al. 2006). TbpA and LbpA each function with a membrane-associated accessory protein (TbpB or transferrin binding protein B and LbpB or lactoferrin binding protein B) of 65-85 kDa based upon strain, and is thought to assist in distinguishing iron-bound from iron-free targets, since neisserial mutants lacking TbpB can still internalize iron from TF, though at a reduced level (Anderson et al. 1994). However, the exact stoichiometry of the TbpA–TbpB and LbpA–LbpB complexes and the nature of the association between the complex components before binding TF or LTF are currently unknown. Several studies have suggested that the ratio is 2:1 for TbpA to TbpB, suggesting that that each TbpA–TbpB complex binds with the ability to extract iron from both lobes of TF (Boulton et al. 1997, 1998). However, lack of structural data on any of the bacterial components of these complexes limits our understanding of the process.
A model of hTF binding and iron removal by the TbpA–TbpB complex exists based upon substantial functional and biochemical evidence (Boulton et al. 1999; Evans and Oakhill 2002). In the model, TbpA and TbpB reside at the bacterial outer membrane either in complex or separately. TbpB has high affinity for iron-bound transferrin (Renauld-Mongenie et al. 1998; Retzer et al. 1998), and is predicted to be bilobal (like hTF) (Fuller et al. 1996), though how TbpB interacts with hTF and with TbpA is currently unclear. It appears that the N-lobe of TbpB interacts with both TbpA and with the C-lobe of hTF, and that there might be a secondary site on the C-lobe of TbpB that interacts with the N-lobe of hTF (Boulton et al. 1999). How TbpB discriminates between the states of hTF (iron-free, iron bound to the N-lobe, iron bound to the C-lobe or iron bound in both lobes) is also currently unknown, though it likely involves an interaction with multiple subdomains, since the structure of the subdomains (at least for the N-lobe) and the relative orientations of the lobes of hTF does not appear to change as iron is bound or released (Jeffrey et al. 1998; MacGillivray et al. 1998; Wally et al. 2006).
It is thought that iron-bound hTF is initially captured by TbpB, and is thereby brought into proximity to bind to TbpA. This hTF–TbpA–TbpB complex is presumed to be the functional unit for iron removal and import into the bacterial periplasm. Iron is removed from the hTF lobe(s) by an unknown mechanism. This action requires that the hTF iron-containing lobe(s) must be opened to disrupt the strongly coordinated iron. This opening could result from separation of the subdomains or from a simple twisting action. However, the movement must be performed in a way that maintains a protected environment for the iron to move through the TbpA barrel and not be lost to the extracellular environment. If TbpA is structurally similar to other TonB-dependent iron transporters (Ferguson et al. 1998, 2002; Locher et al. 1998; Buchanan et al. 1999; Chimento et al. 2003; Kurisu et al. 2003; Yue et al. 2003; Cobessi et al. 2005a, b), the plug domain would be positioned inside the β-barrel, extending from the periplasm (where the TonB box resides) to the extracellular surface. In all known TonB-dependent transporter structures, the floor of the substrate binding pocket is formed by the apical loops of the plug domain, and residues in the plug domain directly coordinate the bound substrate. It is possible therefore that TbpA plug residues provide coordination for iron when it is extracted from hTF. When TonB interacts with the hTF–TbpA–TbpB complex, iron is released from hTF and transported into the periplasm. The transport process may involve partial or complete extraction of the plug domain from the barrel, but the precise mechanism is currently unknown. Once iron is removed from hTF, TbpB will no longer bind it and this might cause dissociation of the complex. However, TbpA binds both iron-free and iron-bound hTF (Krell et al. 2003); how the iron-free hTF is eventually released from TbpA is unknown.
Comparison of the structures of iron-free hTF and LTF has revealed several distinctions that could be important in the differing iron and receptor binding properties of these two proteins. Though hTF and LTF are overall quite similar in sequence and structure, they differ in the structure of their inter-lobe linker (helical in LTF and unstructured in hTF), the presence of a salt bridge between the helical linker of LTF and its C-lobe which is absent in hTF, their pattern of disulfide bonding (inter-subdomain bonding in hTF but not in LTF), the relative orientation of their lobes to one another (the C-lobe of LTF is rotated closer to the N-lobe as compared to hTF), the dilysine trigger and triad residues in hTF which are not present in LTF, the openness of their C-lobes (being more open in hTF), the structure of the C-lobe hinge regions (unstructured in hTF and β-strands in LTF), and their inter-lobe interactions (salt bridge between the C-terminal helix and N-lobe of hTF which is not found in LTF). Analysis of these differences increases our understanding of the divergent functions of these two proteins, as well the necessity for pathogenic bacteria to express independent receptors for two such similar proteins. Crystal structures of the bacterial receptors in complex with their host substrates should provide further insight into these interactions.
We thank Tim Fritz (NIDDK/NIH) for critically reading the manuscript. This work is supported by the Intramural Research Program of the NIH, National Institute of Diabetes and Digestive and Kidney Diseases.