Articles |
From the Department of Molecular Genetics, Biocenter and University of Vienna, Austria (S.M., H.B., J.N., W.J.S.); the Second Department of Internal Medicine, Chiba University School of Medicine, Japan (H.Y., H.B., J.K., T.K., K.S., N.M., Y.S.); and the Department of Cell Biology, Kowa Research Institute, Kowa Co Ltd, Tsukuba, Japan (H.Y.).
| Abstract |
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Key Words: cell adhesion brain vacuolar protein sorting gene family
| Introduction |
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40 residues displaying a triple disulfide bondstabilized negatively charged surface; the presence of such repeats is the minimum requirement for a gene product to belong to the LDLR family; (2) epidermal growth factor precursortype repeats, also containing six cysteines each; (3) modules of
50 residues each, most often in groups of five, with a consensus tetrapeptide, Tyr-Trp-Thr-Asp (LDLR "YWTD" repeats); and (4) in the cytoplasmic region, signals for receptor internalization via coated pits containing the consensus tetrapeptide Asn-Pro-Xaa-Tyr (NPXY).1 The best-characterized binding domain is that of the LDLR, which consists of seven complement-type repeats and recognizes apo B and apo E.2 The other known LDLR family members harbor from one to four clusters with various numbers of ligand-binding repeats. In addition to the LDLR, the family includes the VLDL receptor,3 4 Drosophila yolkless (Yl),5 LRP,6 the C elegans LRP-like gene,7 and gp330/megalin,8 and the three most recent additions, a brain-specific receptor called LR8B in mouse and chicken,9 the so-called apo E receptor 2,10 and the rabbit protein LR11.11
LDLR ligand-binding repeats are also found in proteins whose functions seem to be unrelated to lipoprotein metabolism. Among those known are several proteins of the blood complement system,12 a basement membrane heparan sulfate proteoglycan called perlecan,13 a cortical granule protein in sea urchin,14 a linker chain of earthworm hemoglobin,15 a G proteincoupled receptor in the ganglion of Lymnaea,16 and a chicken Rous sarcoma virus receptor.17 The occurrence of complement-type repeats together with EGF precursor homology domain(s) in some extracellular matrix proteins, such as perlecan, suggests that certain family members might be involved in cell growth, differentiation, and attachment processes.
As mentioned above, we recently discovered and molecularly characterized a novel and unusually complex member of the LDLR gene family in the rabbit.11 The predominant domain of this type I membrane protein consists of a cluster of 11 LDLR ligand-binding repeats; according to our preferred nomenclature,18 the new receptor is called LR11. As described here, this unusual protein is not only present but also very similar in such diverse species as rabbits, humans, and our experimental model system, the chicken. The high level of expression of LR11 in brain of several species supports our notion that LR1111 and LR8B9 are members of a hitherto unknown branch of the LDLR gene family that may participate in brain-specific physiological processes.
| Methods |
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Northern Blot Analysis, RT-PCR, and Cell Culture Experiments
Total RNA was extracted from the indicated chicken tissues and cells, and poly(A)+-RNA was isolated as described previously.4 For analysis of human transcripts, we used the human multiple tissue Northern blots, catalogue Nos. 7750-1, 7755-1, and 7760-1 (Clontech). For Northern blot analysis of chicken LR11, poly(A)+-RNA prepared from the indicated tissues and cultured cells was denatured with glyoxal-dimethylsulfoxide, separated by electrophoresis on a 0.8% agarose gel, and blotted onto Hybond-N+ membrane (Amersham) by standard methods.20 For analysis of human transcripts, the above-described multiple-tissue Northern blot membranes (Clontech) were probed with HB 201 and HB 104 (corresponding to the downstream half of human LR11 cDNA). Chicken transcripts were probed with pC3-10, corresponding to nucleotides 2355 through 2772 (specifying part of domain III) and with a DNA fragment encoding part of domain I. Hybridizations were at 42°C in 50% formamide, 5x SSC, 5x Denhardt's solution, 0.1% SDS, 50 mmol/L sodium phosphate (pH 7.0), 100 µg/mL salmon sperm DNA, and 32P-labeled probe. Washing was performed in 0.1x SSC, 0.1% SDS at 50°C. Filters were exposed to Reflection autoradiography film (NEN Research Products) with intensifying screens. RT-PCR specific for chicken LR11 was performed with primers corresponding to nt 2895 through 2916 (sense) and 3534 through 3558 (antisense), and for apo-VLDL-II the primers corresponded to nt 74 through 98 (sense) and 304 through 328 (antisense), respectively.
LMH/2A cells, a chicken hepatocellular carcinoma cell line stably transfected with the chicken estrogen receptor,22 were a kind gift of Dr D.L. Williams. They were cultured as described previously.22 For stimulation of apo-VLDL-II expression, the serum-free medium contained 50 nmol/L moxestrol (DuPont/NEN), a synthetic analogue of 17ß-hydroxyestradiol for the last 24 hours before the cells were harvested.
| Results |
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72% of the sequence of the chicken homologues of a previously identified 2213-residue rabbit protein called LR11.11 (The nucleotide sequences identified in this study have been deposited in GenBank/EMBL:YO 8109 chicken LR11 and YO 8110 human LR11.)
Fig 1
shows a primary structure comparison of the human and avian LR11 proteins as deduced from their cDNA sequences. Human LR11 cDNA contains an open reading frame of 6642 bp (encoding 2214 amino acids) following an 80-bp 5'-untranslated region (unpublished data, 1996); the cloned homologous partial chicken cDNA codes for 1592 amino acid residues. Despite their considerable size and evolutionary distance, the proteins possess 94% (human versus rabbit11 ) and 84% (human versus chicken) identical residues; furthermore, of the 14 potential N-linked glycosylation sites so far identified in the avian protein, 13 are present in human LR11. These and previous data11 clearly indicate that we now have obtained LR11 cDNAs from three species altogether. In the following, we describe our results from both the human and avian LR11s.
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The 5'-region of the human cDNA specifies a stretch of hydrophobic amino acid residues (Figs 1
and 2
) with a consensus signal sequence cleavage site 28 residues downstream.23 A second hydrophobic region, residues 2136 to 2160, represents a putative transmembrane domain (Figs 1
and 2
, and see below). A TGA stop codon is followed by 118 bp of 3' untranslated region. The calculated molecular weight of the mature human protein is 245 355 (rabbit LR11, 244 67811 ). As originally revealed by analysis of rabbit LR11,11 LR11s are made up of seven distinct domains (Fig 2
). Domain I comprises the N-terminal
350 amino acids; domain II is related to a yeast receptor for vacuolar protein sorting; domain III consists of five tandem LDLR "YWTD" repeats and domain IV of 11 LDLR ligand-binding repeats; domain V comprises six motifs related to the fibronectin-type (FN) III repeat; domain VI is the single putative membrane-spanning region; and domain VII, at the C-terminus, constitutes
50 amino acids predicted to be a cytoplasmatic region with an internalization signal. The partial chicken cDNA revealed a 4776-bp coding sequence missing
280 bp at the N-terminal region and information on the C-terminal 24% of the protein (Figs 1
and 2
). However, the delineated primary sequence, which encompasses domains I to V in exactly the same order as found in rabbit and human LR11s (Fig 2
), clearly identifies the chicken protein as the first avian LR11.
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Domain I is, to the best of our knowledge, the only region of LR11 without significant similarities to other proteins yet highly conserved in the regions known from all three LR11s (>80% identical residues). In human and rabbit LR11s, there is an Arg-Gly-Asp (RGD) tripeptide, normally involved in cell binding of a number of extracellular matrix glycoproteins by interaction with integrins (reviewed, eg, in Reference 2424 ), at amino acid residues 63 through 65; the
75% of cloned domain I of chicken LR11 does not cover these residues.
The second domains (
390 residues) show high homology to a yeast gene, VPS10.11 25 VPS10, the sorting receptor for soluble vacuolar carboxypeptidase Y,26 is a type I transmembrane protein with a large luminal domain containing two homologous repeats of
650 amino acids each. The identities between parts of the two yeast receptor repeats and the single repeats found in the human and chicken LR11s range from 19% to 29%; notably, all 12 cysteines of the LR11 regions are conserved in the corresponding yeast protein domain.
Following the VPS10-like domains, the next
250 residues contain five repeats of
50 residues each with a consensus tetrapeptide, Y/FWXD (asterisks below Y/F in Fig 1
). This region, in all three species and in rabbit and human LR11s, the membrane-spanning and putative intracellular domains, is the most highly conserved feature of LR11. In the LDLR family members characterized to date, such "YWTD" repeats, also usually five, are flanked on both sides by typical EGF precursor motifs containing 6 cysteines each. In the LR11s, they are replaced by a single subdomain with 8 cysteines, which we have assigned to the amino-terminus of domain IV (Reference 1111 and Fig 2
).
Domain IV, from which the designation for this novel group of proteins is derived, is composed of 11 tandemly arranged 6-cysteine repeats found in the LDLR ligand-binding domain, preceded by the above-described 8-cysteine subdomain. All 66 cysteines in the 11 ligand-binding repeats as well as the typical Asp-Xaa-Ser-Asp-Glu motifs at their carboxy-terminal region, are absolutely conserved in LR11s and arranged exactly as in other LDLR family members.
Particularly interesting from an evolutionary point of view is the structure of a genomic region corresponding to the ligand-binding repeat domain in chicken LR11. In a preliminary screening round of a chicken genomic library, we isolated and characterized two clones corresponding to LR11 (Fig 3
). Sequence analysis revealed that these clones contained DNA coding for ligand-binding repeats 1 and 4 to 9, respectively, of chicken LR11. By sequence alignment with the cDNA clones, we identified introns (gt...ag) following the exon encoding repeat 1 and situated between individual exons coding for repeats 4, 5, 6, 7, 8, and 9, respectively. The gene structure of this region is thus highly reminiscent of that of the new other known (partial) genes specifying LDLR family members, characterized by short exons encoding single or small groups of ligand-binding repeats.7 27 28 29
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Domain V, which follows immediately after domain IV, contains 586 residues (human LR11) and is composed of six putative FN III repeats (Figs 1
and 2
). The characteristic highly conserved tryptophan, tyrosine, and leucine residues, as well as numerous less well conserved amino acids,30 are present in the large majority of the repeats in human and rabbit LR11.
Domain VI, the putative membrane-spanning region (
25 mostly hydrophobic residues) is followed by the carboxy-terminal domain VII, presumed to constitute the cytoplasmic region (Figs 1
and 2
). Amazingly, domains VI and VII (79 residues) of rabbit and human LR11 are completely identical. In the short cytoplasmic tail, the sequence Phe-Ala-Asn-Ser-His-Tyr (FANSHY, residues 2172 to 2177 of human LR11) is similar to the internalization signal of coated pit receptors (References 11 and 3131 , and see "Discussion"); there are also positively and negatively charged residues near the transmembrane and the C-terminus, respectively, equivalent to those in the similarly short cytoplasmic domains in LDLRs and VLDLRs.
The human LR11 gene locus was mapped to chromosome 11q 23.3-24 by fluorescence in situ hybridization (unpublished data, 1996), and tissue distribution of LR11 transcripts in humans and chicken were determined by Northern blot analysis (Fig 4
). In humans (Fig 4A
), a transcript of
12 kb was abundant in brain, liver, kidney, and pancreas, with detectable levels in placenta, lung, and heart. The origin of an additional smaller transcript (
8 kb) was not determined. The distribution of LR11 in human brain was studied in greater detail (Fig 4B
). The most abundant expression of LR11 in brain was detected in the cerebellum, the cerebral cortex, and the occipital pole; expression in the putamen and thalamus was low. When other partial human LR11 cDNA clones were used as probes, we obtained identical results (unpublished data, 1996).
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Expression of LR11 in chicken was largely similar to that in rabbit (Fig 4C
), with the exception of the liver, in which only the rabbit showed clearly detectable transcripts11 ; subsequent hybridization with a ß-actin probe confirmed integrity of the poly(A)+-RNA from all tissues (not shown). LR11 was expressed in the brain of all three species; in humans, brain was the predominant site of expression. As in rabbit testis,11 an additional smaller avian transcript showed cross-hybridization; the nature of this LDLR-related transcript is under investigation.
A hallmark property of the LDLR is its tight regulation by sterols,32 but LR11 transcript levels in the livers of rabbit11 and chicken (eg, LR11 levels are normal in the mutant hypercholesterolemic chicken strain "restricted ovulator,"33 not shown) are refractory to changes in cholesterol content. The availability of the estrogen-responsive chicken hepatic cell line LMH/2A allowed us to study an important regulatory aspect of lipoprotein metabolism in the chicken, ie, the effect of estrogen on gene expression. As shown in Fig 5
for control purposes, estrogen dramatically induces transcription of the avian apolipoprotein, apo-VLDL-II in LMH/2A cells, in agreement with previous reports.22 However, LR11 expression is not changed by the addition of the hormone to the culture medium. Thus, both estrogen status and changes in cholesterol levels lack regulatory effects on LR11.
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| Discussion |
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The elements that place LR11 in the LDLR gene family, domains III and IV, themselves display three unusual features, all of which are also present in the human and avian proteins. First, they are separated by a hitherto unknown short domain containing eight cysteine residues, rather than by six-cysteine "EGF precursor type B" repeats,6 which are typical for LDLR family members described to date.11 Second, groups of five YWTD repeats have been found thus far, either downstream or downstream and upstream from the ligand-binding repeat cluster. The presence of five YWTD repeats only at the amino-terminal side of the LR11 binding repeat cluster suggests that there is substantial domain shuffling and that multirepeat modules are conserved because they function as such. Of course, a modifying effect of one domain on the function of neighboring and/or distant domains cannot be excluded. Third, LRP,6 the C elegans putative LRP-like gene product,7 and gp330/megalin8 are the only other proteins that contain clusters of 11 complement-type repeats. In the clusters of these receptors, certain repeats are separated from each other by amino acid stretches called "linker regions."27 LR11s appear to lack a typical linker region; however, a few extra residues preceding repeats 9 and 10, respectively, can be identified. Domain V consists of 6 FN III modules originally defined as 90-residue units repeated 15 times in fibronectin.37 The presence of these repeats in cell adhesion molecules and receptors for cell growth and attachment (see Reference 1111 ) further suggests a potential role of LR11 in cell-cell interaction.
To the best of our knowledge, the amino-terminal domain I of LR11 lacks homologous sequences in current databases, yet it is highly conserved between rabbit,11 human, and chicken. It is notable that rabbit and human LR11 have an Arg-Gly-Asp (RGD) tripeptide in this domain (Fig 1
), because this tripeptide is also found in L1 and homologues.24 Future studies will attempt to identify additional vertebrate genes that contain LR11 domain Ilike sequences. The conservation of the cytoplasmic domains of rabbit and human LR11 is the highest observed to date for any group of LDLR family members. The signature sequence, Phe-Ala-Asn-Ser-His-Tyr (FANSHY) is highly reminiscent of the sequence FDNPXY, which is the common internalization sequence of LDLR gene family members.1 Other features that strongly suggest that LR11s are endocytosis-competent receptors have been discussed previously.11
Domain II will be the focus of our future studies in vertebrates, because thus far such a domain has been identified only in yeast. The luminal domain of VPS10 contains two imperfectly repeated sequences, each followed by a cysteine-rich motif38 ; LR11 shows striking similarities to both VPS10 repeats, including their cysteine-rich regions. The sequence Phe-Tyr-Val-Phe in VPS10, which may function as a Golgi retention/ retrieval signal,38 is not found in LR11. Because the luminal region of the VPS10 protein is suggested to be involved in CPY binding,38 the homologous region in LR11, proposed to be extracellular, may be a site for ligand-receptor interaction(s).11 Vacuolar protein sorting in yeast and lysosomal protein sorting in certain mammalian cell types seem to share similar mechanisms and proteins, yet any involvement of the VPS10 domain in the intracellular and/or vesicle-mediated routing of LR11 must remain highly speculative.
Although the complex structure of LR11 and sterol insensitivity suggest a function(s) other than in lipoprotein metabolism, its abundance in tissues with active cholesterol metabolism, such as brain, liver, and adrenal glands, in which the LDLR is also highly expressed39 requires attention. Recently, Kounnas et al40 reported that LRP binds, in addition to many other possible ligands, ß-amyloid precursor protein and mediates its degradation in vitro. In the absence of a transgenic animal model, we cannot determine which ligand(s) may be the true physiological partner(s) of LR11. The localization in similar brain regions41 of human LR11 and glutamate receptors, thought to play key roles in active brain functions such as learning,42 suggests the functional significance of LR11 in active brain metabolism.
Thus, LR11 in human, chicken, and rabbit11 ; the recently identified LR8B in chicken and mouse9 ; and the so-called apo E receptor 210 appear to define a new group of LDLR family members with possible brain-specific functions. The molecular characterization of the complex LR11 molecules opens new avenues toward the investigation of the biological significance of apparent redundancy in the expression of homologous functional units in different structural context.
Note added in proof. The degree of homology (percent identity) between domain III of the LR11s of chicken and humans is stated to be 98% in Fig 2
. The correct value is 78%, and thus this domain is not the best-conserved region of human and chicken LR11. Consequently, the overall identity between LR11s of humans and chickens is 80% and not 84% as currently stated.
| Selected Abbreviations and Acronyms |
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| Acknowledgments |
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| Footnotes |
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Drs Mörwald and Yamazaki contributed equally to the study.
Received August 2, 1996; accepted September 24, 1996.
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W Hampe, J Urny, I Franke, S. Hoffmeister-Ullerich, D Herrmann, C. Petersen, J Lohmann, and H. Schaller A head-activator binding protein is present in hydra in a soluble and a membrane-anchored form Development, January 9, 1999; 126(18): 4077 - 4086. [Abstract] [PDF] |
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K. Kuhlbrodt, B. Herbarth, E. Sock, I. Hermans-Borgmeyer, and M. Wegner Sox10, a Novel Transcriptional Modulator in Glial Cells J. Neurosci., January 1, 1998; 18(1): 237 - 250. [Abstract] [Full Text] [PDF] |
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K. A. Lindstedt, M. G. Mahon, R. Foisner, M. Hermann, J. Nimpf, and W. J. Schneider Receptor-associated Protein in an Oviparous Species Is Correlated with the Expression of a Receptor Variant J. Biol. Chem., November 28, 1997; 272(48): 30221 - 30227. [Abstract] [Full Text] [PDF] |
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L. Jacobsen, P. Madsen, C. Jacobsen, M. S. Nielsen, J. Gliemann, and C. M. Petersen Activation and Functional Characterization of the Mosaic Receptor SorLA/LR11 J. Biol. Chem., June 15, 2001; 276(25): 22788 - 22796. [Abstract] [Full Text] [PDF] |
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Y. Zhu, H. Bujo, H. Yamazaki, S. Hirayama, T. Kanaki, K. Takahashi, M. Shibasaki, W. J. Schneider, and Y. Saito Enhanced Expression of the LDL Receptor Family Member LR11 Increases Migration of Smooth Muscle Cells In Vitro Circulation, April 16, 2002; 105(15): 1830 - 1836. [Abstract] [Full Text] [PDF] |
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