1
|
Keith G, Glasser AL, Desgrès J, Kuo KC, Gehrke CW. Identification and structural characterization of O-beta-ribosyl-(1"----2')-adenosine-5"-phosphate in yeast methionine initiator tRNA. Nucleic Acids Res 1990; 18:5989-93. [PMID: 2235481 PMCID: PMC332395 DOI: 10.1093/nar/18.20.5989] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
We report in this paper on the complete structure determination of the modified nucleotide A*, now called Ar(p), that was previously identified in yeast methionine initiator tRNA as an isomeric form of O-ribosyl-adenosine bearing an additional phosphoryl-monoester group on its ribose2 moiety. By using the chemical procedure of periodate oxidation and subsequent beta-elimination with cyclohexylamine on mono- and dinucleotides containing Ar(p), we characterized the location of the phosphate group on the C-5" of the ribose2 moiety, and the linkage between the two riboses as a (1"----2')-glycosidic bond. Since the structural difference between phosphatase treated Ar(p) and authentic O-alpha-ribosyl-(1"----2')-adenosine from poly(ADP-Ribose) was previously assigned to an isomeric difference in the ribose2-ribose1 linkage, the (1"----2')-glycosidic bond of Ar(p) was deduced to have a beta-spatial configuration. Thus, final chemical structure for Ar(p) at the position 64 in yeast initiator tRNA(Met) has been established as O-beta-ribosyl-(1"----2')-adenosine-5"-phosphate. This nucleotide is linked by a 3',5'-phosphodiester bond to G at the position 65.
Collapse
Affiliation(s)
- G Keith
- Institut de Biologie Moléculaire et Cellulaire, CNRS, Strasbourg, France
| | | | | | | | | |
Collapse
|
2
|
Desgrès J, Keith G, Kuo KC, Gehrke CW. Presence of phosphorylated O-ribosyl-adenosine in T-psi-stem of yeast methionine initiator tRNA. Nucleic Acids Res 1989; 17:865-82. [PMID: 2646591 PMCID: PMC331709 DOI: 10.1093/nar/17.3.865] [Citation(s) in RCA: 54] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Abstract
We report in this paper on isolation and characterization of two unknown nucleosides G* and [A*] located in the T-psi-stem of yeast methionine initiator tRNA, using the combined means of HPLC protocols, real time UV-absorption spectrum, and post-run mass spectrometry by electron impact or fast atom bombardment. The G* nucleoside in position 65 was identified as unmodified guanosine. The structure of the unknown [A*] in position 64 was characterized as an isomeric form of O-ribosyl-adenosine by comparison of its chromatographic, UV-spectral and mass spectrometric properties with those of authentic O-alpha-ribofuranosyl-(1"----2')-adenosine isolated from biosynthetic poly(adenosine diphosphate ribose). Our studies also brought evidence for the presence of a phosphorylmonoester group located on this new modified nucleoside [A*], when isolated by ion exchange chromatography from enzymic hydrolysis of yeast initiator tRNAMet without phosphatase treatment.
Collapse
Affiliation(s)
- J Desgrès
- Laboratoire de Biochimie Médicale, Université de Bourgogne, Dijon, France
| | | | | | | |
Collapse
|
3
|
Cribbs DL, Leung J, Newton CH, Hayashi S, Miller RC, Tener GM. Extensive microheterogeneity of serine tRNA genes from Drosophila melanogaster. J Mol Biol 1987; 197:397-404. [PMID: 3126300 DOI: 10.1016/0022-2836(87)90553-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The nucleotide sequences of nine genes corresponding to tRNA(Ser)4 or tRNA(Ser)7 of Drosophila melanogaster were determined. Eight of the genes compose the major tRNA(Ser)4,7 cluster at 12DE on the X chromosome, while the other is from 23E on the left arm of chromosome 2. Among the eight X-linked genes, five different, interrelated, classes of sequence were found. Four of the eight genes correspond to tRNA(Ser)4 and tRNA(Ser)7 (which are 96% homologous), two appear to result from single crossovers between tRNA(Ser)4 and tRNA(Ser)7 genes, one is an apparent double crossover product, and the last differs from a tRNA(Ser)4 gene by a single C to T transition at position 50. The single autosomal gene corresponds to tRNA(Ser)7. Comparison of a pair of genes corresponding to tRNA(Ser)4 from D. melanogaster and Drosophila simulans showed that, while gene flanking sequences may diverge considerably by accumulation of point changes, gene sequences are maintained intact. Our data indicate that recombination occurs between non-allelic tRNA(Ser) genes, and suggest that at least some recombinational events may be intergenic conversions.
Collapse
Affiliation(s)
- D L Cribbs
- Department of Biochemistry, University of British Columbia, Vancouver, Canada
| | | | | | | | | | | |
Collapse
|
4
|
Cribbs DL, Gillam IC, Tener GM. Nucleotide sequences of three tRNA(Ser) from Drosophila melanogaster reading the six serine codons. J Mol Biol 1987; 197:389-95. [PMID: 3126299 DOI: 10.1016/0022-2836(87)90552-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The nucleotide sequences of three serine tRNAs from Drosophila melanogaster, together capable of decoding the six serine codons, were determined. tRNA(Ser)2b has the anticodon GCU, tRNA(Ser)4 has CGA and tRNA(Ser)7 has IGA. tRNA(Ser)2b differs from the last two by about 25%. However, tRNA(Ser)4 and tRNA(Ser)7 are 96% homologous, differing only at the first position of the anticodon and two other sites. This unusual sequence relationship suggests, together with similar pairs in the yeasts Schizosaccharomyces pombe and Saccharomyces cerevisiae, that eukaryotic tRNA(Ser)UCN may be undergoing concerted evolution.
Collapse
Affiliation(s)
- D L Cribbs
- Department of Biochemistry, University of British Columbia, Vancouver, Canada
| | | | | |
Collapse
|
5
|
Rácz I, Juhász A, Király I, Lásztity D. Changes in the content of modified nucleotides of total transfer RNA of wheat seedlings during greening. PLANTA 1982; 154:397-401. [PMID: 24276266 DOI: 10.1007/bf01267805] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/1981] [Accepted: 11/09/1981] [Indexed: 06/02/2023]
Abstract
The contents in minor nucleotides of total transfer RNA (tRNA) of etiolated and light-grown wheat (Triticum aestivum L.) seedlings and of seedlings illuminated for 24 or 48 h were examined. The total tRNA of seedlings illuminated 24 h contained more, and that from seedlings illuminated 48 h still more modified nucleotides than that from etiolated ones. Thus, the appearance of the characteristic minor nucleotides of tRNA of light-grown wheat seedlings needs a rather long greening period, of at least 48 h.
Collapse
Affiliation(s)
- I Rácz
- Department of Plant Physiology, Eötvös University, P.O. Box 324, H-1445, Budapest 8, Hungary
| | | | | | | |
Collapse
|
6
|
Abstract
Purified bulk tRNA from Methanococcus vanielii (carbon source, formate) showed variation in the modified nucleoside pattern reported for Escherichia coli as analyzed by both ion-exchange and thin-layer chromatography. Ribothymidine and 7-methylguanosine were absent; 1-methyladenosine, 1-methylguanosine, N2-methylguanosine, N2,N2-dimethylguanosine, thiolated nucleosides, pseudouridine, dihydrouridine, and O2'-methylcytidine were quantitated. In vitro methylation by M. Vannielii extracts with S-adenosylmethionine and undermethylated E. coli tRNA revealed active tRNA methyltransferases for formation of methylated residues found in native M. vannielii tRNA, but none for the formation of 7-methylguanosine or ribothymidine. The native M. vannielii tRNA became methylated in the 7-methylguanosine position by E. Coli extracts, but ribothymidine was not formed. Both M. vannielii and E. coli tRNA methyltransferases produced unidentified methylated residues in tRNA's lacking or deficient in ribothymidine.
Collapse
|
7
|
Abstract
One of the two major species of brewer's yeast tRNA threonine (tRNA Thr 1) has been purified by countercurrent distribution followed by two chromatographic steps (respectively on a Sepharose 4B and a BD-cellulose column). Complete digestion with pancreatic and T1 RNases and a partial hydrolysis with T1 RNase followed by the isolation and determination of the nucleotide sequences of the resulting fragments permitted the derivation of its primary structure. tRNA Thr 1 is in fact a mixture of two subspecies differing only by a A49-U65 base pair in 50 per cent of the molecules which is replaced by a G49-C65 pair in the other 50 per cent. These two subspecies consist of 76 nucleotide residues including 14 minor nucleotides. They show a characteristic m3C at the 3'terminal end of the anticodon loop, an anticodon I-G-U followed by t6A and C48, uncompletely modified (50 per cent) to m5C within the 5 nucleotides long extra-arm. The minor nucleotides m2G m2 2G are located at positions in which they generally occur in the tRNA structures as does m1A within the T-psi-C loop.
Collapse
|
8
|
Hentzen D, Garel JP. Anticodon loop sequences of transfer RNA Ser CGA and transfer RNA Ser IGA from the posterior silkgland of Bombyx mori L. Biochem Biophys Res Commun 1976; 71:241-48. [PMID: 962917 DOI: 10.1016/0006-291x(76)90274-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
|
9
|
Brandriss MC, Stewart JW, Sherman F, Botstein D. Substitution of serine caused by a recessive lethal suppressor in yeast. J Mol Biol 1976; 102:467-76. [PMID: 178877 DOI: 10.1016/0022-2836(76)90328-4] [Citation(s) in RCA: 32] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
|
10
|
ROGG H, MULLER P, STAEHELIN M. Nucleotide Sequences of Rat-Liver Serine tRNA. Structure of Serine tRNA3 and Partial Nucleotide Sequences of Serine tRNA2a. ACTA ACUST UNITED AC 1975. [DOI: 10.1111/j.1432-1033.1975.tb04048.x] [Citation(s) in RCA: 30] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
11
|
Kraus J, Staehelin M. N2-guanine specific transfer RNA methyltransferase I from rat liver and leukemic rat spleen. Nucleic Acids Res 1974; 1:1455-78. [PMID: 10793703 PMCID: PMC343424 DOI: 10.1093/nar/1.11.1455] [Citation(s) in RCA: 31] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
An enzyme was purified from rat liver and leukemic rat spleen which methylates guanosine residues in tRNA to N(2)-methylguanosine. By sequence analysis of bulk E. coli tRNA methylated with crude extracts it was shown that the enzyme is responsible for about 50% of total m(2)G formed invitro. The extent of methylation of a number of homogenous tRNA species was measured using the purified enzyme from both sources. Among tested E. coli tRNAs only tRNA(Arg), tRNA(Phe), and tRNA(Val) yielded significantly more m(2)G than the bulk tRNA. The K(m) for tRNA(Arg) in the methylation reaction with enzymes from either tissue was 7.8 x 10(-7) M as compared to the value 1 x 10(-5) M obtained for the bulk tRNA. In a pancreatic RNase digest of bulk tRNA as well as of pure tRNA(Arg), tRNA(Phe), and tRNA(Val), A-m(2)G-Cp was found to be the only sequence methylated. Thus, the mammalian methyltransferase specifically recognizes the guanylate residue at position 10 from the 5'-end contained in a sequence (s(4))U-A-G-Cp. Furthermore, there is no change between the enzyme from normal liver and leukemic spleen in the affinity for tRNA, the methylating capacity, and tRNA site and sequence recognition specificity.
Collapse
|
12
|
Sivarajan M, Gupta RC, Chia LL, Randerath E, Randerath K. Tritium sequence analysis of oligoribonucleotides: a combination of post-labeling and thin-layer chromatographic techniques for the analysis of partial snake venom phosphodiesterase digests. Nucleic Acids Res 1974; 1:1329-41. [PMID: 10793693 PMCID: PMC344354 DOI: 10.1093/nar/1.10.1329] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
A tritium derivative method for sequence analysis of polyribonucleotides is detailed, which is based on borotritide reduction of oligonucleotide-3' dialdehydes generated by controlled snake venom phosphodiesterase/alkaline phosphomonoesterase digestion and periodate treatment of time point aliquots of the incubation mixture. Radioactive oligonucleotide derivatives are resolved according to chain length by PEI-cellulose(1) anion-exchange TLC and their 3'-termini identified by techniques described in the preceding paper of this series(2). The present tritium derivative method is compared with the one described previously(2).
Collapse
|
13
|
Falk W, Tamm C. [Nucleosides and nucleotides. 3. Polycondensation of thymidine-3'-phosphate by the triester method]. Helv Chim Acta 1972; 55:1928-47. [PMID: 5077583 DOI: 10.1002/hlca.19720550611] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
|
14
|
Murao K, Tanabe T, Ishii F, Namiki M, Nishimura S. Primary sequence of arginine transfer RNA from Escherichia coli. Biochem Biophys Res Commun 1972; 47:1332-7. [PMID: 4557171 DOI: 10.1016/0006-291x(72)90218-5] [Citation(s) in RCA: 52] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
|
15
|
Séquin U, Tamm C. Nucleosides and nucleotides. 2. Synthesis of both anomers of 1-(5'-O-phosphoryl-2'-deoxy-D-ribofuranosyl)-2(1H)-pyridone. Helv Chim Acta 1972; 55:1196-218. [PMID: 5036613 DOI: 10.1002/hlca.19720550417] [Citation(s) in RCA: 30] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
|
16
|
Ohashi Z, Murao K, Yahagi T, Von Minden D, McCloskey JA, Nishimura S. Characterization of C+ located in the first position of the anticodon of Escherichia coli tRNAMet as. ACTA ACUST UNITED AC 1972. [DOI: 10.1016/0005-2787(72)90234-1] [Citation(s) in RCA: 41] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
17
|
Rogg H, Staehelin M. Nucleotide sequences of rat liver serine-tRNA. 2. The products of digestion with ribonuclease T. EUROPEAN JOURNAL OF BIOCHEMISTRY 1971; 21:243-8. [PMID: 5105576 DOI: 10.1111/j.1432-1033.1971.tb01462.x] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
|
18
|
Ginsberg T, Rogg H, Staehelin M. Nucleotide sequences of rat liver serine-tRNA. 3. The partial enzymatic of serine-tRNA and derivation of its total primary structure. EUROPEAN JOURNAL OF BIOCHEMISTRY 1971; 21:249-57. [PMID: 5105577 DOI: 10.1111/j.1432-1033.1971.tb01463.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
|