RNA recognition by a human antibody against brain cytoplasmic 200 RNA

RNA

Volumn 20, Issue 6, 2014, Pages 805-814

  Jung, Euihan ^a   Lee, Jungmin ^a   Hong, Hyo Jeong ^b   Park, Insoo ^c   Lee, Younghoon ^a  

^a Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

^b Kangwon National University   (South Korea)

^c National Cancer Center   (South Korea)

Author keywords

BC200 RNA; Breast cancer cells; Human monoclonal antibody; Noncoding RNA; RNA recognition

Indexed keywords

BRAIN CYTOPLASMIC 200 RNA; HUMAN MONOCLONAL ANTIBODY; IMMUNOGLOBULIN F(AB) FRAGMENT; MONOCLONAL ANTIBODY BC200 A3; RNA; RNA ANTIBODY; UNCLASSIFIED DRUG;

ANTIBODY SPECIFICITY; ANTIGEN BINDING; ANTIGEN RECOGNITION; ARTICLE; BINDING AFFINITY; BREAST CANCER CELL LINE; CELL PERMEABILIZATION; COMBINATORIAL CHEMISTRY; CONTROLLED STUDY; DISSOCIATION CONSTANT; FLOW CYTOMETRY; GENE EXPRESSION; HUMAN; HUMAN CELL; IMMUNOASSAY; IN VITRO STUDY; MUTAGENESIS; PRIORITY JOURNAL; PROTEIN EXPRESSION; RNA ANALYSIS; RNA BINDING; RNA CONFORMATION; RNA HYBRIDIZATION; RNA PROBE; RNA PURIFICATION; RNA SEQUENCE; TRANSPOSON;

BC200 RNA; BREAST CANCER CELLS; HUMAN MONOCLONAL ANTIBODY; NONCODING RNA; RNA RECOGNITION;

ANTIBODIES, MONOCLONAL; BASE SEQUENCE; BRAIN; CELL LINE, TUMOR; CYTOPLASM; HUMANS; MOLECULAR SEQUENCE DATA; MUTATION; NUCLEIC ACID CONFORMATION; RNA;

EID: 84901477461     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.040899.113     Document Type: Article

References (32)

1. Bovia F, Strub K. 1996. The signal recognition particle and related smallcytoplasmic ribonucleoprotein particles. J Cell Sci 109: 2601-2608. (Pubitemid 26388344)
2. Breaker RR. 2012. Riboswitches and the RNA world. Cold Spring HarbPerspect Biol 4: a003566.
3. Cao X, Yeo G, Muotri AR, Kuwabara T, Gage FH. 2006. NoncodingRNAs in the mammalian central nervous system. Annu Rev Neurosci29: 77-103. (Pubitemid 44476840)
4. Carninci P, Kasukawa T, Katayama S, Gough J, Frith MC, Maeda N,Oyama R, Ravasi T, Lenhard B, Wells C, et al. 2005. The transcriptionallandscape of the mammalian genome. Science 309: 1559-1563.
5. Chen W, Bocker W, Brosius J, Tiedge H. 1997. Expression of neuralBC200 RNA in human tumours. J Pathol 183: 345-351. (Pubitemid 27505222)
6. Chowdhury S, Maris C, Allain FH, Narberhaus F. 2006. Molecular basisfor temperature sensing by an RNA thermometer. EMBO J 25:2487-2497. (Pubitemid 44012231)
7. Fang J, Yi S, Simmons A, Tu GH, Nguyen M, Harding TC, VanRoey M,Jooss K. 2007. An antibody delivery system for regulated expressionof therapeutic levels of monoclonal antibodies in vivo. Mol Ther 15:1153-1159. (Pubitemid 46813618)
8. Gram H, Marconi LA, Barbas CF III, Collet TA, Lerner RA, Kang AS.1992. In vitro selection and affinity maturation of antibodies froma naive combinatorial immunoglobulin library. Proc Natl Acad Sci89: 3576-3580.
9. Iacoangeli A, Lin Y, Morley EJ, Muslimov IA, Bianchi R, Reilly J,Weedon J, Diallo R, Bocker W, Tiedge H. 2004. BC200 RNA ininvasive and preinvasive breast cancer. Carcinogenesis 25: 2125-2133 (Pubitemid 39534849)
10. International Human Genome Sequencing Consortium. 2004. Finishing the euchromatic sequence of the human genome. Nature 431:931-945.
11. Koldobskaya Y, Duguid EM, Shechner DM, Suslov NB, Ye JD, Sidhu SS,Bartel DP, Koide S, Kossiakoff AA, Piccirilli JA. 2011. A portableRNA sequence whose recognition by a synthetic antibody facilitatesstructural determination. Nat Struct Mol Biol 18: 100-106.
12. Kugel JF, Goodrich JA. 2012. Non-coding RNAs: key regulators ofmammalian transcription. Trends Biochem Sci 37: 144-151.
13. Kuo PY, Sherwood JK, Saltzman WM. 1998. Topical antibody deliverysystems produce sustained levels in mucosal tissue and blood. NatBiotechnol 16: 163-167. (Pubitemid 28078504)
14. Laird-Offringa IA, Belasco JG. 1996. In vitro genetic analysis of RNAbindingproteins using phage display libraries. Methods Enzymol267: 149-168.
15. Lee ES, Jeong MS, Singh R, Jung J, Yoon H, Min JK, Kim KH, Hong HJ.2012. A chimeric antibody to L1 cell adhesion molecule shows therapeuticeffect in an intrahepatic cholangiocarcinoma model. ExpMol Med 44: 293-302.
16. Lee JY, Park H, Bak G, Kim KS, Lee Y. 2013. Regulation of transcriptionfrom two ssrS promoters in 6S RNA biogenesis. Mol Cells 36:227-234.
17. Lefranc MP. 2011. IMGT unique numbering for the variable (V), constant(C), and groove (G) domains of IG, TR, MH, IgSF, and MhSF.Cold Spring Harb Protoc 2011: 633-642.
18. McCormick M. 1987. Sib selection. Methods Enzymol 151: 445-449.
19. Neve RM, Chin K, Fridlyand J, Yeh J, Baehner FL, Fevr T, Clark L,Bayani N, Coppe JP, Tong F, et al. 2006. A collection of breast cancercell lines for the study of functionally distinct cancer subtypes.Cancer Cell 10: 515-527.
20. Pokkuluri PR, Bouthillier F, Li Y, Kuderova A, Lee J, Cygler M. 1994.Preparation, characterization and crystallization of an antibodyFab fragment that recognizes RNA: crystal structures of native Faband three Fab-mononucleotide complexes. J Mol Biol 243: 283-297.
21. Ryu CJ, Padlan EA, Jin BR, Yoo OJ, Hong HJ. 1996. A humanized antibodywith specificity for hepatitis B surface antigen. HumAntibodies Hybridomas 7: 113-122. (Pubitemid 27105445)
22. Schier R, Bye J, Apell G, McCall A, Adams GP, Malmqvist M,Weiner LM, Marks JD. 1996. Isolation of high-affinity monomerichuman anti-c-erbB-2 single chain Fv using affinity-driven selection.J Mol Biol 255: 28-43.
23. Stollar BD. 1980. The experimental induction of antibodies to nucleicacids. Methods Enzymol 70: 70-85.
24. Tiedge H, Chen W, Brosius J. 1993. Primary structure, neural-specificexpression, and dendritic location of human BC200 RNA. JNeurosci 13: 2382-2390. (Pubitemid 23151755)
25. Ullu E, Tschudi C. 1984. Alu sequences are processed 7SL RNA genes.Nature 312: 171-172.
26. Walter P, Blobel G. 1982. Signal recognition particle contains a 7S RNAessential for protein translocation across the endoplasmic reticulum.Nature 299: 691-698.
27. Wan Y, Kertesz M, Spitale RC, Segal E, Chang HY. 2011. Understandingthe transcriptome through RNA structure. Nat Rev Genet 12:641-655.
28. Wan Y, Qu K, Ouyang Z, Kertesz M, Li J, Tibshirani R, Makino DL,Nutter RC, Segal E, Chang HY. 2012. Genome-wide measurementof RNA folding energies. Mol Cell 48: 169-181.
29. Wilusz JE, Sunwoo H, Spector DL. 2009. Long noncoding RNAs: functionalsurprises from the RNA world. Genes Dev 23: 1494-1504.
30. Ye JD, Tereshko V, Frederiksen JK, Koide A, Fellouse FA, Sidhu SS,Koide S, Kossiakoff AA, Piccirilli JA. 2008. Synthetic antibodiesfor specific recognition and crystallization of structured RNA. ProcNatl Acad Sci 105: 82-87.
31. Zhao Y, Huang Y, Gong Z, Wang Y, Man J, Xiao Y. 2012. Automated andfast building of three-dimensional RNA structures. Sci Rep 2: 734.
32. Zuker M. 2003. Mfold web server for nucleic acid folding and hybridizationprediction. Nucleic Acids Res 31: 3406-3415. (Pubitemid 37442169)