Internal-loops (also termed interior loops) in RNA are found where the double stranded RNA separates due to no Watson-Crick-Franklin base pairing between the nucleotides. Internal-loops differ from Stem-loops as they occur in middle of a stretch of double stranded RNA. The non-canonicoal residues result in the double helix becoming distorted due to unwinding, unstacking and kinking.
Internal-loops can be classified as either symmetrical or asymmetrical, with some asymmetrical internal-loops, also known as bulges. Many important structural motifs are composed of internal loops such as the C-loop,[1] the docking-elbow,[2] kink-turns (k-turn),[3][4] the right-angle,[5] the sarcin/ricin loops (also called bulged-G motifs),[6][7][8] the twist-up motif[9] and the UAA/GAN internal loop motif.[10]
^Lehmann, J; Jossinet, F; Gautheret, D (May 1, 2013). "A universal RNA structural motif docking the elbow of tRNA in the ribosome, RNAse P and T-box leaders". Nucleic Acids Research. 41 (10): 5494–502. doi:10.1093/nar/gkt219. PMC3664808. PMID 23580544.
^Klein, D.J. (2001). "The kink-turn: a new RNA secondary structure motif". The EMBO Journal. 20 (15): 4214–4221. doi:10.1093/emboj/20.15.4214. ISSN 1460-2075. PMC149158. PMID 11483524.
^Schroeder, KT; McPhee, SA; Ouellet, J; Lilley, DM (Aug 2010). "A structural database for k-turn motifs in RNA". RNA. 16 (8): 1463–8. doi:10.1261/rna.2207910. PMC2905746. PMID 20562215.
^Grabow, WW; Zhuang, Z; Swank, ZN; Shea, JE; Jaeger, L (Nov 23, 2012). "The right angle (RA) motif: a prevalent ribosomal RNA structural pattern found in group I introns". Journal of Molecular Biology. 424 (1–2): 54–67. doi:10.1016/j.jmb.2012.09.012. PMC3488136. PMID 22999957.
^ abcSzewczak, AA; Moore, PB (Mar 17, 1995). "The sarcin/ricin loop, a modular RNA". Journal of Molecular Biology. 247 (1): 81–98. doi:10.1006/jmbi.1994.0124. PMID 7897662.
^Leontis, NB; Westhof, E (Oct 30, 1998). "A common motif organizes the structure of multi-helix loops in 16 S and 23 S ribosomal RNAs". Journal of Molecular Biology. 283 (3): 571–83. doi:10.1006/jmbi.1998.2106. PMID 9784367.
^ abZhong, C; Zhang, S (Feb 2012). "Clustering RNA structural motifs in ribosomal RNAs using secondary structural alignment". Nucleic Acids Research. 40 (3): 1307–17. doi:10.1093/nar/gkr804. PMC3273805. PMID 21976732.
^ abLee, JC; Gutell, RR; Russell, R (Jul 28, 2006). "The UAA/GAN internal loop motif: a new RNA structural element that forms a cross-strand AAA stack and long-range tertiary interactions". Journal of Molecular Biology. 360 (5): 978–88. doi:10.1016/j.jmb.2006.05.066. PMID 16828489.
internal, loop, internal, loops, also, termed, interior, loops, found, where, double, stranded, separates, watson, crick, franklin, base, pairing, between, nucleotides, internal, loops, differ, from, stem, loops, they, occur, middle, stretch, double, stranded,. Internal loops also termed interior loops in RNA are found where the double stranded RNA separates due to no Watson Crick Franklin base pairing between the nucleotides Internal loops differ from Stem loops as they occur in middle of a stretch of double stranded RNA The non canonicoal residues result in the double helix becoming distorted due to unwinding unstacking and kinking Internal loops can be classified as either symmetrical or asymmetrical with some asymmetrical internal loops also known as bulges Many important structural motifs are composed of internal loops such as the C loop 1 the docking elbow 2 kink turns k turn 3 4 the right angle 5 the sarcin ricin loops also called bulged G motifs 6 7 8 the twist up motif 9 and the UAA GAN internal loop motif 10 References Edit Lescoute A Leontis NB Massire C Westhof E 2005 Recurrent structural RNA motifs Isostericity Matrices and sequence alignments Nucleic Acids Research 33 8 2395 409 doi 10 1093 nar gki535 PMC 1087784 PMID 15860776 Lehmann J Jossinet F Gautheret D May 1 2013 A universal RNA structural motif docking the elbow of tRNA in the ribosome RNAse P and T box leaders Nucleic Acids Research 41 10 5494 502 doi 10 1093 nar gkt219 PMC 3664808 PMID 23580544 Klein D J 2001 The kink turn a new RNA secondary structure motif The EMBO Journal 20 15 4214 4221 doi 10 1093 emboj 20 15 4214 ISSN 1460 2075 PMC 149158 PMID 11483524 Schroeder KT McPhee SA Ouellet J Lilley DM Aug 2010 A structural database for k turn motifs in RNA RNA 16 8 1463 8 doi 10 1261 rna 2207910 PMC 2905746 PMID 20562215 Grabow WW Zhuang Z Swank ZN Shea JE Jaeger L Nov 23 2012 The right angle RA motif a prevalent ribosomal RNA structural pattern found in group I introns Journal of Molecular Biology 424 1 2 54 67 doi 10 1016 j jmb 2012 09 012 PMC 3488136 PMID 22999957 a b c Szewczak AA Moore PB Mar 17 1995 The sarcin ricin loop a modular RNA Journal of Molecular Biology 247 1 81 98 doi 10 1006 jmbi 1994 0124 PMID 7897662 Leontis NB Westhof E Oct 30 1998 A common motif organizes the structure of multi helix loops in 16 S and 23 S ribosomal RNAs Journal of Molecular Biology 283 3 571 83 doi 10 1006 jmbi 1998 2106 PMID 9784367 Moore PB 1999 Structural motifs in RNA Annu Rev Biochem 68 287 300 doi 10 1146 annurev biochem 68 1 287 PMID 10872451 a b Zhong C Zhang S Feb 2012 Clustering RNA structural motifs in ribosomal RNAs using secondary structural alignment Nucleic Acids Research 40 3 1307 17 doi 10 1093 nar gkr804 PMC 3273805 PMID 21976732 a b Lee JC Gutell RR Russell R Jul 28 2006 The UAA GAN internal loop motif a new RNA structural element that forms a cross strand AAA stack and long range tertiary interactions Journal of Molecular Biology 360 5 978 88 doi 10 1016 j jmb 2006 05 066 PMID 16828489 See also EditStem loop Nucleic acid secondary structure Retrieved from https en wikipedia org w index php title Internal loop amp oldid 1136264616, wikipedia, wiki, book, books, library,
