Genomic organization, expression, and localization of murine Ran-binding protein 2 (RanBP2) gene

Mammalian Genome

Volumn 12, Issue 6, 2001, Pages 406-415

  Fauser, S ^a   Aslanukov, A ^a   Roepman, R ^b   Ferreira, P A ^a  

^a MEDICAL COLLEGE OF WISCONSIN   (United States)

^b NONE

Author keywords

[No Author keywords available]

Indexed keywords

BINDING PROTEIN; CYCLOPHILIN; NUCLEOPORIN; RAN BINDING PROTEIN 2; RAN PROTEIN; UNCLASSIFIED DRUG; ZINC FINGER PROTEIN;

5' UNTRANSLATED REGION; AMINO ACID SEQUENCE; CONFERENCE PAPER; CONTROLLED STUDY; CPG ISLAND; DNA METHYLATION; DNA SEQUENCE; GENETIC ORGANIZATION; GENOME; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; PROMOTER REGION; PROTEIN EXPRESSION; PROTEIN LOCALIZATION; SOUTHERN BLOTTING;

ANIMALS; BASE SEQUENCE; BLOTTING, SOUTHERN; CELL NUCLEUS; CHROMOSOME MAPPING; CHROMOSOMES, HUMAN, PAIR 2; CPG ISLANDS; CYTOPLASM; DNA, COMPLEMENTARY; DNA-BINDING PROTEINS; EXONS; FEMALE; GENE LIBRARY; HUMANS; INTRONS; MALE; MICE; MICE, INBRED C57BL; MODELS, GENETIC; MOLECULAR CHAPERONES; MOLECULAR SEQUENCE DATA; NUCLEAR PORE COMPLEX PROTEINS; NUCLEAR PROTEINS; PHYSICAL CHROMOSOME MAPPING; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; RECOMBINATION, GENETIC; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID; TISSUE DISTRIBUTION;

EID: 0034996105     PISSN: 09388990     EISSN: None     Source Type: Journal    
DOI: 10.1007/s003350010291     Document Type: Conference Paper

References (87)

1. Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD et al. (2000) The genome sequence of Drosophila melanogaster. Science 287, 2185-2195
2. Aebi M, Hornig H, Padgett RA, Reiser J, Weissmann C (1986) Sequence requirements for splicing of higher eukaryotic nuclear pre-mRNA. Cell 47, 555-565
3. Antignac C, Arduy CH, Beckmann JS, Benessy F, Gros F et al. (1993) A gene for familial juvenile nephronophthisis (recessive medullary cystic kidney disease) maps to chromosome 2p. Nat Genet 3, 342-345
4. Bird AP (1986) CpG-rich islands and the function of DNA methylation. Nature 321, 209-213
5. Bischoff FR, Krebber H, Smirnova E, Dong W, Ponstingl H (1995) Coactivation of RanGTPase and inhibition of GTP dissociation by RanGTP binding protein RanBP1, EMBO J 14, 705-715
6. Boichis H, Passwell J, David R, Miller H (1973) Congenital hepatic fibrosis and nephronophthisis: a family study. Quart J Med 42, 221-233
7. Boylan J, Wright AF (2000) Identification of a novel protein interacting with RPGR. Hum Mol Genet 9, 2085-2093
8. Bucher P (1990) Weight matrix descriptions of four eukaryotic RNA polymerase II promoter elements derived from 502 unrelated promoter sequences. J Mol Biol 212, 563-578
9. Burge C, Karlin S (1997) Prediction of complete gene structures in human genomic DNA. J Mol Biol 268, 78-94
10. Chen S, Wang QL, Nie Z, Sun H, Lennon G et al. (1997) Crx, a novel Otx-like paired-homeodomain protein, binds to and transactivates photoreceptor cell-specific genes. Neuron 19, 1017-1030
11. Chodosh LA, Olesen J, Hahn S, Baldwin AS, Guarente L, Sharp PA (1988) A yeast and a human CCAAT-binding protein have heterologous subunits that are functionally interchangeable. Cell 53, 25-35
12. Cohen AH, Hoyer JR (1986) Nephronophthisis: a primary tubular basement membrane defect. Lab Invest 55, 564-572
13. Coutavas E, Ren M, Oppenheim JD, D'Eustachio P, Rush MG (1993) Characterization of proteins that interact with the cell-cycle regulatory protein Ran/TC4. Nature 366, 585-587
14. Cui H, Horon IL, Ohlsson R, Hamilton SR, Feinberg AP (1998) Loss of imprinting in normal tissue of colorectal cancer patients with microsatellite instability. Nat Med 4, 1276-1280
15. Delaney V, Mullaney J, Bourke E (1978) Juvenile nephronophthisis, congenital hepatic fibrosis and retinal hypoplasia in twins. Quart J Med 186, 281-296
16. Drabent B, Genthe A, Benecke BJ (1986) In vitro transcription of a human hsp 70 heat shock gene by extracts prepared from heat-shocked and non-heat-shocked human cells. Nucleic Acids Res 14, 8933-8948
17. DuBois RN, McLane MW, Ryder K, Lau LF, Nathans D (1990) A growth factor-inducible nuclear protein with a novel cysteine/histidine repetitive sequence. J Biol Chem 265, 19185-19191
18. Ferreira P (2000) Characterization of RanBP2-associated molecular components in the neuroretina. Methods Enzymol 315, 455-468
19. Ferreira PA, Hom J, Pak W (1995) Retina-specifically expressed new subtypes of bovine cyclophilin. J Biol Chem 270, 23179-23188
20. Ferreira PA, Nakayama T, Pak W, Travis G (1996) Cyclophilin-related protein RanBP2 acts as chaperone for red/green opsin. Nature 383, 637-640
21. Ferreira PA, Nakayama TA, Travis GH (1997) Interconversion of red opsin isoforms by the cyclophilin-related chaperone protein Ran-binding protein 2. Proc Natl Acad Sci USA 94, 1556-1561
22. Ferreira PA, Yunfei C, Schick D, Roepman R (1998) The cyclophilin-like domain mediates the association of Ran-binding protein 2 with subunits of the 19 S regulatory complex of the proteasome. J Biol Chem 273, 24676-24682
23. Fischer HD, Dodgson JB, Hughes S, Engel JD (1984) An unusual 5′ splice sequence is efficiently utilized in vivo. Proc Natl Acad Sci USA 81, 2733-2737
24. Frech K, Danescu-Mayer J, Werner T (1997) A novel method to develop highly specific models for regulatory units detects a new LTR in Gen-Bank which contains a functional promoter. J Mol Biol 270, 674-687
25. Furukawa T, Morrow EM, Cepko CL (1997) Crx, a novel otx-like homeobox gene, shows photoreceptor-specific expression and regulates photoreceptor differentiation. Cell 91, 531-541
26. Goulding MD, Chalepakis G, Deutsch U, Erselius JR, Gruss P (1991)Pax-3, a novel murine DNA binding protein expressed during early neurogenesis. EMBO J 10, 1135-1147
27. Guo B, Odgren PR, van Wijnen AJ, Last TJ, Nickerson J et al. (1995) The nuclear matrix protein NMP-1 is the transcription factor YY1. Protein Natl Acad Sci USA 92, 10526-10530
28. Haendler B, Hofer E (1990) Characterization of the human cyclophilin gene and of related processed pseudogenes. Eur J Biochem 190, 477-482
29. Hildebrandt F, Otto E, Rensing C, Nothwang HG, Vollmer M et al. (1997)A novel gene encoding an SH3 domain protein is mutated in nephronophthisis type 1. Nat Genet 17, 149-153
30. Hofmann K, Bucher P, Falquet L, Bairoch A (1999) The PROSITE database, its status in 1999. Nucleic Acids Res 27, 215-219
31. Huet J, Cottrelle P, Cool M, Vignais M-L, Thiele D et al. (1985) A general upstream binding factor for genes of the yeast translational apparatus. EMBO J 4, 3539-3547
32. Huh NE, Hwang IW, Lim K, You KH, Chae CB (1991) Presence of abi-directional S phase-specific transcription regulatory element in the promoter shared by testis-specific TH2A and TH2B histone genes. Nucleic Acids Res 19, 93-98
33. Kola I, Brookes S, Green AR, Garber R, Tymms M et al. (1993). The Ets1 transcription factor is widely expressed during murine embryo development and is associated with mesodermal cells involved in morphogenetic processes such as organ formation. Proc Natl Acad Sci USA 90, 7588-7592
34. Komuro I, Izumo S (1993) Csx: a murine homeobox-containing gene specifically expressed in the developing heart. Proc Natl Acad Sci USA 90, 8145-8149
35. Konrad M, Saunier S, Heidet L, Silbermann F, Benessy F et al. (1996) Large homozygous deletions of the 2q13 region are a major cause of juvenile nephronophthisis. Hum Mol Genet 5, 367-371
36. Krebber H, Bastians H, Hoheisel J, Lichter P, Ponstingl H, Joos S (1997) Localization of the gene encoding the Ran-binding protein RanBP2 to human chromosome 2q11-q13 by fluorescence in situ hybridization. Genomics 43, 247-248; doi:10.1006/geno. 1997.4777
37. Lee MP, Hu RJ, Johnson LA, Feinberg AP (1997) Human KVLQT1 gene shows tissue-specific imprinting and encompasses Beckwith-Wiedemann syndrome chromosomal rearrangements. Nat Genet 15,181-185
38. Leverson JD, Ness SA (1998) Point mutations in v-Myb disrupt a cyclophilin-catalyzed negative regulatory mechanism. Mol Cell 1, 203-211
39. Lints TJ, Parsons LM, Hartley L, Lyons I, Harvey RP (1993) Nkx-2.5: a novel murine homeobox gene expressed in early heart progenitor cells and their myogenic descendants. Development 119, 419-431
40. Loken AC, Hanssen O, Halvorsen S, Jolster NJ (1961) Hereditary renal dysplasia and blindness. Acta Paediatr 50, 177-184
41. Ludwig EH, Blackhart BD, Pierotti VR, Caiati L, Fortier C et al. (1987) DNA sequence of the human apolipoprotein B gene. DNA 6, 363-372
42. Mainzer F, Saldino RM, Ozonoff MB, Minagi H (1970) Familial nephropathy associated with retinitis pigmentosa, cerebellar ataxia and skeletal abnormalities. Am J Med 49, 556-562
43. Martinez JA, Barnstable CJ (1998) Erx, a novel retina-specific homeodomain transcription factor, can interact with Ret 1/PCEI sites. Biochem Biophys Res Commun 250, 175-180; doi:10.1006/bbrc.1998.9261
44. Martinez-Mir A, Paloma E, Allikmets R, Ayuso C, del Rio T et al. (1998) Retinitis pigmentosa caused by a homozygous mutation in the Stargardt disease gene ABCR. Nat Genet 18, 11-12
45. McMorrow I, Bastos R, Horton H, Burke B (1994) Sequence analysis of a cDNA encoding a human nuclear pore complex protein, hnup153. Biochim Biophys Acta 1217, 219-223
46. Mewes HW, Albermann K, Bahr M, Frishman D, Gleissner A et al. (1997) Overview of the yeast genome. Nature 387 (suppl), 7-65
47. Mizuta K, Tsujii R, Warner JR, Nishiyama M (1998) The C-terminal silencing domain of Rap1p is essential for the repression of ribosomal protein genes in response to a detect in the secretory pathway. Nucleic Acids Res 26, 1063-1069
48. Moehle CM, Hinnebusch AG (1991) Association of RAP1 binding sites with stringent control of ribosomal protein gene transcription in Saccharomyces cerevisiae. Mol Cell Biol 11, 2723-2735
49. Morabito MA, Yu X, Barnstable CJ (1991) Characterization of developmentally regulated and retina-specific nuclear protein binding to a site in the upstream region of the rat opsin gene. J Biol Chem 266, 9667-9672
50. Muscat GEO, Gustafson TA, Kedes L (1988) A common factor regulates skeletal and cardiac alpha-actin gene transcription in muscle. Mol Cell Biol 8, 4120-4133
51. Nakielny S, Dreyfuss G (1999) Transport of proteins and RNAs in and out of the nucleus. Cell 99, 677-690
52. Natesan S, Gilman M (1995) YY1 facilitates the association of serum response factor with the c-fos serum response element. Mol Cell Biol 15, 5975-5982
53. Natesan S, Gilman MZ (1993) DNA bending and orientation-dependent function of YY1 in the c-fos promoter. Genes Dev 7, 2497-2509
54. Nathans J, Thomas D, Hogness DS (1986) Molecular genetics of human color vision: the genes encoding blue, green, and red pigments. Science 232, 193-202
55. Nikovits W, Mar JH, Ordahl CP (1990) Muscle-specific activity of the skeletal troponin I promoter requires interaction between upstream regulatory sequences and elements contained within the first transcribed exon. Mol Cell Biol 10, 3468-3482
56. Nothwang HG, Rensing C, Kubler M, Denich D, Brandl B et al. (1998) Identification of a novel Ran binding protein 2 related gene (RANBP2L1) and detection of a gene cluster on human chromosome 2q11-q12. Genomics 47, 383-392; doi:10.1006/geno.1997.5119
57. Nowak I, Seipel K, Schwarz M, Jans DA, Hemmings BA (1987) Isolation of a cDNA and characterization of the 5′ flanking region of the gene encoding the type I regulatory subunit of the cAMP-dependent protein kinase. Eur J Biochem 167, 27-33
58. Périer RC, Praz V, Junier T, Bonnard C, Bucher P (2000) The Eukaryotic Promoter Database (EPD). Nucleic Acids Res 28, 302-303
59. Pierrou S, Hellqvist M, Samuelsson L, Enerback S, Carlsson P (1994) Cloning and characterization of seven human forkhead proteins: binding site specificity and DNA bending. EMBO J 13, 5002-5012
60. Prestridge DA (1995) Predicting Pol II promoter sequences using transcription factor binding sites. J Mol Biol 249, 923-932
61. Proesmans W, Van Damme B, Macken J (1975) Nephronophthisis and tapetoretinal degeneration associated with liver fibrosis. Clin Nephrol 3, 160-164
62. Qian N, Frank D. O'Keefe D, Dao D, Zhao L et al. (1997) The IPL gene on chromosome 11p15.5 is imprinted in humans and mice and is similar to TDAG51, implicated in Fas expression and apoptosis. Hum Mol Genet 6, 2021-2029
63. Quandt K, Frech K, Karas H, Wingender E, Werner T (1995) MatInd and MatInspector - new fast and versatile tools for detection of consensus matches in nucleotide sequence data. Nucleic Acids Res 23, 4878-4884
64. Quandt K, Grote K, Werner T (1996) GenomeInspector: a new approach to detect correlation patterns of elements on genomic sequences. Comput Appl Biosci 12, 405-413
65. Roepman R, Bernoud N, Schick D, Maugeri A, Hans-Hilger R et al. (2000) The retinitis pigmentosa GTPase regulator interacts with a novel motor-like protein in the outer segments of rod photoreceptors. Hum Mol Genet 9, 2095-2105
66. Royaux I, Lambert de Rouvroit C, D'Arcangelo G, Demirov D, Goffinet AM (1997) Genomic organization of the mouse reelin gene. Genomics 46, 240-250
67. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular Cloning: A Laboratory Manual 2nd ed. (Cold Spring Harbor, N.Y.: Cold Spring Harbor Laboratory Press)
68. Saunier S, Calado J, Benessy F, Silbermann F, Heilig R et al. (2000) Characterization of the NPHP1 locus: mutational mechanism involved in deletions in familial juvenile nephronophthisis. Am J Hum Genet 66, 778-789
69. Scherf M, Klingenhoff A, Werner T (2000) Highly specific localization of promoter regions in large genomic sequences by PromoterInspector: a novel context analysis approach. J Mol Biol 297, 599-606
70. Schubert U, Anton L, Gibbs J, Norbury C, Yewdell J, Bennink J (2000) Rapid degradation of a large fraction of newly synthesized proteins by proteasomes. Nature 404, 770-774
71. Senior B, Friedmann AI, Braudo JL (1961) Juvenile familial nephropathy with tapetoretinal degeneration: a new oculorenal dystrophy. Am J Ophthalmol 52, 625-633
72. Singh B, Patel H, Roepman R, Schick D, Ferreira PA (1999) The Zincfinger cluster domain of RanBP2 is a specific docking site for the nuclear export factor, Exportin-1. J Biol Chem 274, 37370-37378
73. Steele BT, Lirenman DS, Beattie GW (1980) Nephronophthisis. Am J Med 58, 531-538
74. Strickland E, Hakala K, Thomas P, DeMartino GN (2000) Recognition of misfolding proteins by PA700, the regulatory subcomplex of the 26S proteasome. J Biol Chem 275, 5565-5572
75. Su L-K, Steinbach G, Sawyer JC, Hindi M, Ward PA, Lynch PM (2000) Genomic rearrangements of the APC tumor-suppressor gene in familial adenomatous polyposis. Hum Genet, 106, 101-107
76. Tsutsumi K, Ito K, Ishikawa K (1989) Developmental appearance of transcription factors that regulate liver-specific expression of the aldolase B gene. Mol Cell Biol 9, 4923-4931
77. Uberbacher EC, Mural RJ (1991) Locating protein-coding regions in human DNA sequences by a multiple sensor-neural network approach. Proc Natl Acad Sci USA 88, 11261-11265
78. Wang LF, Zhu HD, Miao SY, Cao DF, Wu YW et al. (1999) Molecular cloning and characterization of a novel testis-specific nucleoporin-related gene. Arch Androl 42, 71-84
79. Warady BA, Cibis G, Alon U, Blowey D, Hellerstein S (1994) Senior-Loken syndrome: revisited. Pediatrics 94, 111-112
80. Wasylyk B, Wasylyk C, Flores P, Begue A, Leprince D, Stehelin D (1990) The c-ets proto-oncogenes encode transcription factors that cooperate with c-Fos and c-Jun for transcriptional activation. Nature 346, 191-193
81. Werner T (1999) Models for prediction and recognition of eukaryotic promoters. Mamm Genome 10, 168-175
82. Wilken N, Senecal JL, Scheer U, Dabauvalle MC (1995) Localization of the Ran-GTP binding protein RanBP2 at the cytoplasmic side of the nuclear pore complex. Eur J Cell Biol 68, 211-219
83. Wingender E, Chen X, Hehl R, Karas H, Liebich I et al. (2000) TRANS-FAC: an integrated system for gene expression regulation. Nucleic Acids Res 28, 316-319
84. Wu B, Hunt C, Morimoto R (1985) Structure and expression of the human gene encoding major heat shock protein HSP70. Mol Cell Biol 5, 330-341
85. Wu J, Matunis MJ, Kraemer D, Blobel G, Coutavas E (1995) Nup358, a cytoplasmically exposed nucleoporin with peptide repeats, Ran-GTP binding sites, zinc fingers, a cyclophilin A homologous domain, and a leucine-rich region. J Biol Chem 270, 14209-14213
86. Yaffe MB, Schutkowski M, Shen M, Zhou XZ, Stukenberg PT et al. (1997) Sequence-specific and phosphorylation-dependent proline isomerization: a potential mitotic regulatory mechanism. Science 278, 1957-1960
87. Yokoyama N, Hayashi N, Seki T, Pante N, Ohba T et al. (1995) A giant nucleopore protein that binds Ran/TC4. Nature 376, 184-188