Rewriting the rules for end joining via enzymatic splicing of DNA 3′-PO4 and 5′-OH ends

Proceedings of the National Academy of Sciences of the United States of America

Volumn 110, Issue 51, 2013, Pages 20437-20442

  Das, Ushati ^a   Chakravarty, Anupam K ^a   Remus, Barbara S ^a   Shuman, Stewart ^a  

^a MEMORIAL SLOAN KETTERING CANCER CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GUANOSINE PHOSPHATE; RNA LIGASE; RNA LIGASE RTCB; UNCLASSIFIED DRUG;

ARTICLE; CATALYSIS; CONTROLLED STUDY; DNA END JOINING REPAIR; DNA SPLICING; DNA STRUCTURE; ENZYMATIC DNA SPLICING; ENZYME ACTIVITY; ENZYME MECHANISM; PRIORITY JOURNAL; PROTEIN FUNCTION;

EID: 84890830418     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1314289110     Document Type: Article

References (22)

1. Tanaka N, Shuman S (2011) RtcB is the RNA ligase component of an Escherichia coli RNA repair operon. J Biol Chem 286(10):7727-7731.
2. Tanaka N, Meineke B, Shuman S (2011) RtcB, a novel RNA ligase, can catalyze tRNA splicing and HAC1 mRNA splicing in vivo. J Biol Chem 286(35):30253-30257.
3. Englert M, Sheppard K, Aslanian A, Yates JR, 3rd, Söll D (2011) Archaeal 3′-Phosphate RNA splicing ligase characterization identifies the missing component in tRNA maturation. Proc Natl Acad Sci USA 108(4):1290-1295.
4. Popow J, et al. (2011) HSPC117 is the essential subunit of a human tRNA splicing ligase complex. Science 331(6018):760-764.
5. Tanaka N, Chakravarty AK, Maughan B, Shuman S (2011) Novel mechanism of RNA repair by RtcB via sequential 2′,3′-Cyclic phosphodiesterase and 3′-Phosphate/5′-Hydroxyl ligation reactions. J Biol Chem 286(50):43134-43143.
6. Chakravarty AK, Subbotin R, Chait BT, Shuman S (2012) RNA ligase RtcB splices 3′-Phosphate and 5′-OH ends via covalent RtcB-(histidinyl)-GMP and polynucleotide-(3′) pp(5′)G intermediates. Proc Natl Acad Sci USA 109(16):6072-6077.
7. Chakravarty AK, Shuman S (2012) The sequential 2′,3′-Cyclic phosphodiesterase and 3′-Phosphate/5′-OH ligation steps of the RtcB RNA splicing pathway are GTP-Dependent. Nucleic Acids Res 40(17):8558-8567.
8. Eastberg JH, Pelletier J, Stoddard BL (2004) Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase. Nucleic Acids Res 32(2):653-660.
9. Garces F, Pearl LH, Oliver AW (2011) The structural basis for substrate recognition by mammalian polynucleotide kinase 3′ phosphatase. Mol Cell 44(3):385-396.
10. Coquelle N, Havali-Shahriari Z, Bernstein N, Green R, Glover JNM (2011) Structural basis for the phosphatase activity of PNKP on single-And double-Stranded DNA substrates. Proc Natl Acad Sci USA 108:21022-21027.
11. Wang LK, Das U, Smith P, Shuman S (2012) Structure and mechanism of the polynucleotide kinase component of the bacterial Pnkp-Hen1 RNA repair system. RNA 18(12):2277-2286.
12. Nair PA, Smith P, Shuman S (2010) Structure of bacterial LigD 3′-Phosphoesterase unveils a DNA repair superfamily. Proc Natl Acad Sci USA 107(29):12822-12827.
13. Smith P, Nair PA, Das U, Zhu H, Shuman S (2011) Structures and activities of archaeal members of the LigD 3′-Phosphoesterase DNA repair enzyme superfamily. Nucleic Acids Res 39(8):3310-3320.
14. Das U, Shuman S (2013) Mechanism of RNA 2′,3′-Cyclic phosphate end healing by T4 polynucleotide kinase-Phosphatase. Nucleic Acids Res 41(1):355-365.
15. Sekiguchi J, Shuman S (1997) Site-Specific ribonuclease activity of eukaryotic DNA topoisomerase I. Mol Cell 1(1):89-97.
16. Reijns MAM, et al. (2012) Enzymatic removal of ribonucleotides from DNA is essential for mammalian genome integrity and development. Cell 149(5):1008-1022.
17. Kim N, et al. (2011) Mutagenic processing of ribonucleotides in DNA by yeast topoisomerase I. Science 332(6037):1561-1564.
18. Sparks JL, et al. (2012) RNase H2-Initiated ribonucleotide excision repair. Mol Cell 47(6):980-986.
19. Williams JS, et al. (2013) Topoisomerase 1-Mediated removal of ribonucleotides from nascent leading-Strand DNA. Mol Cell 49(5):1010-1015.
20. Desai KK, Bingman CA, Phillips GN, Jr., Raines RT (2013) Structures of the noncanonical RNA ligase RtcB reveal the mechanism of histidine guanylylation. Biochemistry 52(15):2518-2525.
21. Englert M, et al. (2012) Structural and mechanistic insights into guanylylation of RNAsplicing ligase RtcB joining RNA between 3′-Terminal phosphate and 5′-OH. Proc Natl Acad Sci USA 109(38):15235-15240.
22. Das U, Shuman S (2013) 2′-Phosphate cyclase activity of RtcA: A potential rationale for the operon organization of RtcA with an RNA repair ligase RtcB in Escherichia coli and other bacterial taxa. RNA 19(10):1355-1362.