-
1
-
-
0029169650
-
Genetic dissection of synthesis and function of modified nucleosides in bacterial transfer RNA
-
Bjork GR: Genetic dissection of synthesis and function of modified nucleosides in bacterial transfer RNA. Prog Nucleic Acid Res Mol Biol 1995, 50:263-338.
-
(1995)
Prog Nucleic Acid Res Mol Biol
, vol.50
, pp. 263-338
-
-
Bjork, G.R.1
-
2
-
-
0001918945
-
Location and distribution of modified nucleotides in tRNA
-
In Edited by: Grosjean H, Benne P, Washington: ASM Press
-
Auffinger P, Westhof E: Location and distribution of modified nucleotides in tRNA. In Modification and editing of RNA Edited by: Grosjean H, Benne P, Washington: ASM Press; 1998:569-576.
-
(1998)
Modification and Editing of RNA
, pp. 569-576
-
-
Auffinger, P.1
Westhof, E.2
-
3
-
-
0037439213
-
tRNA transfers to the limelight
-
Hopper AK, Phizicky EM: tRNA transfers to the limelight. Genes Dev 2003, 17(2):162-180.
-
(2003)
Genes Dev
, vol.17
, Issue.2
, pp. 162-180
-
-
Hopper, A.K.1
Phizicky, E.M.2
-
4
-
-
3042731061
-
Bioinformatics-guided identification and experimental characterization of novel RNA methyltransferases
-
In Edited by: Bujnicki JM. Berlin: Springer-Verlag
-
Bujnicki JM, Droogmans L, Grosjean H, Purushothaman SK, Lapeyre B: Bioinformatics-guided identification and experimental characterization of novel RNA methyltransferases. In Practical Bioinformatics Volume 15. Edited by: Bujnicki JM. Berlin: Springer-Verlag; 2004:139-168.
-
(2004)
Practical Bioinformatics Volume 15
, pp. 139-168
-
-
Bujnicki, J.M.1
Droogmans, L.2
Grosjean, H.3
Purushothaman, S.K.4
Lapeyre, B.5
-
5
-
-
0038643071
-
7G46) methyltransferase
-
7G46) methyltransferase. J Bacteriol 2003, 185(10):3238-3243.
-
(2003)
J Bacteriol
, vol.185
, Issue.10
, pp. 3238-3243
-
-
De Bie, L.G.1
Roovers, M.2
Oudjama, Y.3
Wattiez, R.4
Tricot, C.5
Stalon, V.6
Droogmans, L.7
Bujnicki, J.M.8
-
6
-
-
3343024377
-
Identification of a bifunctional enzyme MnmC involved in the biosynthesis of a hypermodified uridine in the wobble position of tRNA
-
Bujnicki JM, Oudjama Y, Roovers M, Owczarek S, Caillet J, Droogmans L: Identification of a bifunctional enzyme MnmC involved in the biosynthesis of a hypermodified uridine in the wobble position of tRNA. Rna 2004, 10(8):1236-1242.
-
(2004)
Rna
, vol.10
, Issue.8
, pp. 1236-1242
-
-
Bujnicki, J.M.1
Oudjama, Y.2
Roovers, M.3
Owczarek, S.4
Caillet, J.5
Droogmans, L.6
-
7
-
-
0033302662
-
6-adenine DNA methylation
-
6-adenine DNA methylation. In Silica Biol 1999, 1(4):175-182.
-
(1999)
Silico Biol
, vol.1
, Issue.4
, pp. 175-182
-
-
Bujnicki, J.M.1
-
8
-
-
0036529621
-
Comparative genomics and evolution of proteins involved in RNA metabolism
-
Anantharaman V, Koonin EV, Aravind L: Comparative genomics and evolution of proteins involved in RNA metabolism. Nucleic Acids Res 2002, 30(7):1427-1464.
-
(2002)
Nucleic Acids Res
, vol.30
, Issue.7
, pp. 1427-1464
-
-
Anantharaman, V.1
Koonin, E.V.2
Aravind, L.3
-
9
-
-
0036132209
-
SPOUT: A class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases
-
Anantharaman V, Koonin EV, Aravind L: SPOUT: a class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases. J Mol Microbiol Biotechnol 2002, 4(1):71-75.
-
(2002)
J Mol Microbiol Biotechnol
, vol.4
, Issue.1
, pp. 71-75
-
-
Anantharaman, V.1
Koonin, E.V.2
Aravind, L.3
-
10
-
-
0038374971
-
Many paths to methyltransfer: A chronicle of convergence
-
Schubert HL, Blumenthal RM, Cheng X: Many paths to methyltransfer: a chronicle of convergence. Trends Biochem Sci 2003, 28(6):329-335.
-
(2003)
Trends Biochem Sci
, vol.28
, Issue.6
, pp. 329-335
-
-
Schubert, H.L.1
Blumenthal, R.M.2
Cheng, X.3
-
11
-
-
0034596029
-
The FtsJ/RrmJ heat shock protein of Escherichia coli is a 23 Sribosomal RNA methyltransferase
-
Caldas T, Binet E, Bouloc P, Costa A, Desgres J, Richarme G: The FtsJ/RrmJ heat shock protein of Escherichia coli is a 23 Sribosomal RNA methyltransferase. J Biol Chem 2000, 275(22):16414-16419.
-
(2000)
J Biol Chem
, vol.275
, Issue.22
, pp. 16414-16419
-
-
Caldas, T.1
Binet, E.2
Bouloc, P.3
Costa, A.4
Desgres, J.5
Richarme, G.6
-
12
-
-
0033637117
-
RNA methylation under heat shockcontrol
-
Bugl H, Fauman EB, Staker BL, Zheng F, Kushner SR, Saper MA, Bardwell JC, Jakob U: RNA methylation under heat shockcontrol. Mol Cell 2000, 6(2):349-360.
-
(2000)
Mol Cell
, vol.6
, Issue.2
, pp. 349-360
-
-
Bugl, H.1
Fauman, E.B.2
Staker, B.L.3
Zheng, F.4
Kushner, S.R.5
Saper, M.A.6
Bardwell, J.C.7
Jakob, U.8
-
13
-
-
1842404152
-
The spoU gene of Escherichia, coli, the fourth gene of the spoT operon, is essential for tRNA (Gm 18) 2′-O-methyltransferase activity
-
Persson BC, Jager G, Gustafsson C: The spoU gene of Escherichia, coli, the fourth gene of the spoT operon, is essential for tRNA (Gm 18) 2′-O-methyltransferase activity. Nucleic Acids Res 1997, 25(20):4093-4097.
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.20
, pp. 4093-4097
-
-
Persson, B.C.1
Jager, G.2
Gustafsson, C.3
-
14
-
-
1842607227
-
Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme
-
Nureki O, Watanabe K, Fukai S, Ishii R, Endo Y, Hori H, Yokoyama S: Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme. Structure (Camb) 2004, 12(4):593-602.
-
(2004)
Structure (Camb)
, vol.12
, Issue.4
, pp. 593-602
-
-
Nureki, O.1
Watanabe, K.2
Fukai, S.3
Ishii, R.4
Endo, Y.5
Hori, H.6
Yokoyama, S.7
-
15
-
-
0037007220
-
Trm7p catalyses the formation of two 2′-O-methylriboses in yeast tRNA anticodon loop
-
Pintard L, Lecointe F, Bujnicki JM, Bonnerot C, Grosjean H, Lapeyre B: Trm7p catalyses the formation of two 2′-O-methylriboses in yeast tRNA anticodon loop. Embo J 2002, 21(7):1811-1820.
-
(2002)
Embo J
, vol.21
, Issue.7
, pp. 1811-1820
-
-
Pintard, L.1
Lecointe, F.2
Bujnicki, J.M.3
Bonnerot, C.4
Grosjean, H.5
Lapeyre, B.6
-
16
-
-
0037413674
-
Molecular phylogenetics of the RrmJ/fibrillarin superfamily of ribose 2′-O-methyltransferases
-
Feder M, Pas J, Wyrwicz LS, Bujnicki JM: Molecular phylogenetics of the RrmJ/fibrillarin superfamily of ribose 2′-O-methyltransferases. Gene 2003, 302(1-2):129-138.
-
(2003)
Gene
, vol.302
, Issue.1-2
, pp. 129-138
-
-
Feder, M.1
Pas, J.2
Wyrwicz, L.S.3
Bujnicki, J.M.4
-
17
-
-
33644875540
-
MODOMICS: A database of RNA modification pathways
-
(Database)
-
Dunin-Horkawicz S, Czerwoniec A, Gajda MJ, Feder M, Grosjean H, Bujnicki JM: MODOMICS: a database of RNA modification pathways. Nucleic Acids Res 2006, 34(Database):D145-149.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Dunin-Horkawicz, S.1
Czerwoniec, A.2
Gajda, M.J.3
Feder, M.4
Grosjean, H.5
Bujnicki, J.M.6
-
18
-
-
0029832294
-
Identification of new RNA modifying enzymes by iterative genome search using known modifying enzymes as probes
-
Gustafsson C, Reid R, Greene PJ, Santi DV: Identification of new RNA modifying enzymes by iterative genome search using known modifying enzymes as probes. Nucleic Acids Res 1996, 24(19):3756-3762.
-
(1996)
Nucleic Acids Res
, vol.24
, Issue.19
, pp. 3756-3762
-
-
Gustafsson, C.1
Reid, R.2
Greene, P.J.3
Santi, D.V.4
-
19
-
-
0036774065
-
The structure of the RlmB 23S rRNA methyltransferase reveals a new methyltransferase fold with a unique knot
-
Michel G, Sauve V, Larocque P, Li Y, Matte A, Cygler M: The structure of the RlmB 23S rRNA methyltransferase reveals a new methyltransferase fold with a unique knot. Structure (Camb) 2002, 10:1303-1315.
-
(2002)
Structure (Camb)
, vol.10
, pp. 1303-1315
-
-
Michel, G.1
Sauve, V.2
Larocque, P.3
Li, Y.4
Matte, A.5
Cygler, M.6
-
20
-
-
0035997122
-
An enzyme with a deep trefoil knot for the active-site architecture
-
Nureki O, Shirouzu M, Hashimoto K, Ishitani R, Terada T, Tamakoshi M, Oshima T, Chijimatsu M, Takio K, Vassylyev DG, et al.: An enzyme with a deep trefoil knot for the active-site architecture. Acta Crystallogr D Biol Crystallogr 2002, 58(Pt 7):1129-1137.
-
(2002)
Acta Crystallogr D Biol Crystallogr
, vol.58
, Issue.PART 7
, pp. 1129-1137
-
-
Nureki, O.1
Shirouzu, M.2
Hashimoto, K.3
Ishitani, R.4
Terada, T.5
Tamakoshi, M.6
Oshima, T.7
Chijimatsu, M.8
Takio, K.9
Vassylyev, D.G.10
-
21
-
-
20944443509
-
A complete set of Escherichia coli open reading frames in mobile plasmids facilitating genetic studies
-
Saka K, Tadenuma M, Nakade S, Tanaka N, Sugawara H, Nishikawa K, Ichiyoshi N, Kitagawa M, Mori H, Ogasawara N, et al.: A complete set of Escherichia coli open reading frames in mobile plasmids facilitating genetic studies. DNA Res 2005, 12(1):63-68.
-
(2005)
DNA Res
, vol.12
, Issue.1
, pp. 63-68
-
-
Saka, K.1
Tadenuma, M.2
Nakade, S.3
Tanaka, N.4
Sugawara, H.5
Nishikawa, K.6
Ichiyoshi, N.7
Kitagawa, M.8
Mori, H.9
Ogasawara, N.10
-
22
-
-
24044464543
-
Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays
-
Ito M, Baba T, Mori H: Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays. Metab Eng 2005, 7(4):318-327.
-
(2005)
Metab Eng
, vol.7
, Issue.4
, pp. 318-327
-
-
Ito, M.1
Baba, T.2
Mori, H.3
-
23
-
-
0037375572
-
Structure of the YibK methyltransferase from Haemophilus influenzae (H10766): A cofactor bound at a site formed by a knot
-
Lim K, Zhang H, Tempczyk A, Krajewski W, Bonander N, Toedt J, Howard A, Eisenstein E, Herzberg O: Structure of the YibK methyltransferase from Haemophilus influenzae (H10766): a cofactor bound at a site formed by a knot. Proteins 2003, 51(1):56-67.
-
(2003)
Proteins
, vol.51
, Issue.1
, pp. 56-67
-
-
Lim, K.1
Zhang, H.2
Tempczyk, A.3
Krajewski, W.4
Bonander, N.5
Toedt, J.6
Howard, A.7
Eisenstein, E.8
Herzberg, O.9
-
24
-
-
0043123216
-
GeneSilico protein structure prediction meta-server
-
Kurowski MA, Bujnicki JM: GeneSilico protein structure prediction meta-server. Nucleic Acids Res 2003, 31(13):3305-3307.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.13
, pp. 3305-3307
-
-
Kurowski, M.A.1
Bujnicki, J.M.2
-
25
-
-
9644281537
-
Structure and function of the antibiotic resistance-mediating methyltransferase AviRb from Streptomyces viridochromogenes
-
Mosbacher TG, Bechthold A, Schulz GE: Structure and function of the antibiotic resistance-mediating methyltransferase AviRb from Streptomyces viridochromogenes. J Mol Biol 2005, 345(3):535-545.
-
(2005)
J Mol Biol
, vol.345
, Issue.3
, pp. 535-545
-
-
Mosbacher, T.G.1
Bechthold, A.2
Schulz, G.E.3
-
26
-
-
0242362160
-
A "FRankenstein's monster" approach to comparative modeling: Merging the finest fragments of Fold-Recognition models and iterative model refinement aided by 3D structure evaluation
-
Kosinski J, Cymerman IA, Feder M, Kurowski MA, Sasin JM, Bujnicki JM: A "FRankenstein's monster" approach to comparative modeling: merging the finest fragments of Fold-Recognition models and iterative model refinement aided by 3D structure evaluation. Proteins 2003, 53(Suppl 6):369-379.
-
(2003)
Proteins
, vol.53
, Issue.SUPPL. 6
, pp. 369-379
-
-
Kosinski, J.1
Cymerman, I.A.2
Feder, M.3
Kurowski, M.A.4
Sasin, J.M.5
Bujnicki, J.M.6
-
27
-
-
30344466041
-
FRankenstein becomes a cyborg: Theautomatic recombination and realignment of Fold-Recognition models inCASP6
-
Kosinski J, Gajda MJ, Cymerman IA, Kurowski MA, Pawlowski M, Boniecki M, Obarska A, Papaj G, Sroczynska-Obuchowicz P, Tkaczuk KL, et al.: FRankenstein becomes a cyborg: theautomatic recombination and realignment of Fold-Recognition models inCASP6. Proteins 2005.
-
(2005)
Proteins
-
-
Kosinski, J.1
Gajda, M.J.2
Cymerman, I.A.3
Kurowski, M.A.4
Pawlowski, M.5
Boniecki, M.6
Obarska, A.7
Papaj, G.8
Sroczynska-Obuchowicz, P.9
Tkaczuk, K.L.10
-
28
-
-
15444370839
-
Roles of conserved amino acid, sequence motifsin the SpoU (TrmH) RNA methyltransferase family
-
Watanabe K, Nureki O, Fukai S, Ishii R, Okamoto H, Yokoyama S, Endo Y, Hori H: Roles of conserved amino acid, sequence motifsin the SpoU (TrmH) RNA methyltransferase family. J Biol Chem 2005, 280(11):10368-10377.
-
(2005)
J Biol Chem
, vol.280
, Issue.11
, pp. 10368-10377
-
-
Watanabe, K.1
Nureki, O.2
Fukai, S.3
Ishii, R.4
Okamoto, H.5
Yokoyama, S.6
Endo, Y.7
Hori, H.8
-
29
-
-
37349087176
-
Conserved ribosomal RNA modification and their putative roles in ribosome biogenesis and translation
-
In Edited by: Grosjean H. Berlin-Heidelberg: Springer-Verlag
-
Lapeyre B: Conserved ribosomal RNA modification and their putative roles in ribosome biogenesis and translation. In Finetuning of RNA functions by modification and editing Volume 12. Edited by: Grosjean H. Berlin-Heidelberg: Springer-Verlag; 2005.
-
(2005)
Finetuning of RNA Functions By Modification and Editing Volume 12
-
-
Lapeyre, B.1
-
30
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation ofprotein database search programs
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation ofprotein database search programs. Nucleic Acids Res 1997, 25(17):3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
31
-
-
0035863196
-
A primordial tRNA modification required for the evolution of life?
-
Bjork GP, Jacobsson K, Nilsson K, Johansson MJ, Bystrom AS, Persson OP: A primordial tRNA modification required for the evolution of life? Embo J 2001, 20(1-2):231-239.
-
(2001)
Embo J
, vol.20
, Issue.1-2
, pp. 231-239
-
-
Bjork, G.P.1
Jacobsson, K.2
Nilsson, K.3
Johansson, M.J.4
Bystrom, A.S.5
Persson, O.P.6
-
32
-
-
2542429274
-
Distinct origins of tRNA(mlG37) methyltransferase
-
Christian T, Evilia C, Williams S, Hou YM: Distinct origins of tRNA(mlG37) methyltransferase. J Mol Biol 2004, 339(4):707-719.
-
(2004)
J Mol Biol
, vol.339
, Issue.4
, pp. 707-719
-
-
Christian, T.1
Evilia, C.2
Williams, S.3
Hou, Y.M.4
-
33
-
-
0032953571
-
The yeast Saccharomyces cerevisiae YDL112w ORF encodes the putative 2′-O-ribose methyltransferase catalyzing the formation of Gm18 in tRNAs
-
Cavaille J, Chetouani F, Bachellerie JP: The yeast Saccharomyces cerevisiae YDL112w ORF encodes the putative 2′-O-ribose methyltransferase catalyzing the formation of Gm18 in tRNAs. Rna 1999, 5(1):66-81.
-
(1999)
Rna
, vol.5
, Issue.1
, pp. 66-81
-
-
Cavaille, J.1
Chetouani, F.2
Bachellerie, J.P.3
-
34
-
-
0035955465
-
1 A58 methyltransferase family: Homology-based fold prediction and identification of new members from Eubacteria and Archaea
-
1 A58 methyltransferase family: homology-based fold prediction and identification of new members from Eubacteria and Archaea. FEBS Lett 2001, 507(2):123-127.
-
(2001)
FEBS Lett
, vol.507
, Issue.2
, pp. 123-127
-
-
Bujnicki, J.M.1
-
35
-
-
1342307286
-
1 A) methyltransferase
-
1 A) methyltransferase. Nucleic Acids Res 2004, 32(2):465-476.
-
(2004)
Nucleic Acids Res
, vol.32
, Issue.2
, pp. 465-476
-
-
Roovers, M.1
Wouters, J.2
Bujnicki, J.M.3
Tricot, C.4
Stalon, V.5
Grosjean, H.6
Droogmans, L.7
-
36
-
-
0028239805
-
Crystal structure of unmodifiedtRNA(GIn) complexed with glutaminyl-tRNA synthetase and ATP suggests a possible role for pseudo-uridines in stabilization of RNA structure
-
Arnez JG, Steitz TA: Crystal structure of unmodifiedtRNA(GIn) complexed with glutaminyl-tRNA synthetase and ATP suggests a possible role for pseudo-uridines in stabilization of RNA structure. Biochemistry 1994, 33(24):7560-7567.
-
(1994)
Biochemistry
, vol.33
, Issue.24
, pp. 7560-7567
-
-
Arnez, J.G.1
Steitz, T.A.2
-
37
-
-
0034672325
-
Estimation of protein secondary structure from circular dichroism spectra: Comparison of CONTIN, SELCON, and CDSSTR methods with an expanded reference set
-
Sreerama N, Woody RW: Estimation of protein secondary structure from circular dichroism spectra: comparison of CONTIN, SELCON, and CDSSTR methods with an expanded reference set. Anal Biochem 2000, 287(2):252-260.
-
(2000)
Anal Biochem
, vol.287
, Issue.2
, pp. 252-260
-
-
Sreerama, N.1
Woody, R.W.2
-
38
-
-
3142766402
-
Detection and quantification of modified nucleotides in RNA using thin-layer chromatography
-
Grosjean H, Keith G, Droogmans L: Detection and quantification of modified nucleotides; in RNA using thin-layer chromatography. Methods Mol Biol 2004, 265:357-391.
-
(2004)
Methods Mol Biol
, vol.265
, pp. 357-391
-
-
Grosjean, H.1
Keith, G.2
Droogmans, L.3
|