-
1
-
-
0000612435
-
Stable RNA modification
-
Neidhardt F.C., and Curtiss R. (Eds), ASM Press, Washington, DC
-
Bjork G. Stable RNA modification. In: Neidhardt F.C., and Curtiss R. (Eds). Escherichia coli and Salmonella: Cellular and Molecular Biology. 2nd edit. (1996), ASM Press, Washington, DC 861-886
-
(1996)
Escherichia coli and Salmonella: Cellular and Molecular Biology. 2nd edit.
, pp. 861-886
-
-
Bjork, G.1
-
3
-
-
44949173836
-
Structure, dynamics, and function of RNA modification enzymes
-
Ishitani R., Yokoyama S., and Nureki O. Structure, dynamics, and function of RNA modification enzymes. Curr. Opin. Struct. Biol. 18 (2008) 330-339
-
(2008)
Curr. Opin. Struct. Biol.
, vol.18
, pp. 330-339
-
-
Ishitani, R.1
Yokoyama, S.2
Nureki, O.3
-
5
-
-
0141880634
-
Pseudouridines and pseudouridine synthases of the ribosome
-
Ofengand J., Malhotra A., Remme J., Gutgsell N.S., Del Campo M., Jean-Charles S., et al. Pseudouridines and pseudouridine synthases of the ribosome. Cold Spring Harb. Symp. Quant. Biol. 66 (2001) 147-159
-
(2001)
Cold Spring Harb. Symp. Quant. Biol.
, vol.66
, pp. 147-159
-
-
Ofengand, J.1
Malhotra, A.2
Remme, J.3
Gutgsell, N.S.4
Del Campo, M.5
Jean-Charles, S.6
-
6
-
-
0034680364
-
Hypermodified nucleosides in the anticodon of tRNALys stabilize a canonical U-turn structure
-
Sundaram M., Durant P.C., and Davis D.R. Hypermodified nucleosides in the anticodon of tRNALys stabilize a canonical U-turn structure. Biochemistry 39 (2000) 12575-12584
-
(2000)
Biochemistry
, vol.39
, pp. 12575-12584
-
-
Sundaram, M.1
Durant, P.C.2
Davis, D.R.3
-
7
-
-
32644447756
-
Post-transcriptional nucleotide modification and alternative folding of RNA
-
Helm M. Post-transcriptional nucleotide modification and alternative folding of RNA. Nucleic Acids Res. 34 (2006) 721-733
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 721-733
-
-
Helm, M.1
-
8
-
-
1242309517
-
Decoding the genome: a modified view
-
Agris P.F. Decoding the genome: a modified view. Nucleic Acids Res. 32 (2004) 223-238
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 223-238
-
-
Agris, P.F.1
-
9
-
-
37649019612
-
Pseudouridylation of helix 69 of 23S rRNA is necessary for an effective translation termination
-
Ejby M., Sorensen M.A., and Pedersen S. Pseudouridylation of helix 69 of 23S rRNA is necessary for an effective translation termination. Proc. Natl Acad. Sci. USA 104 (2007) 19410-19415
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 19410-19415
-
-
Ejby, M.1
Sorensen, M.A.2
Pedersen, S.3
-
10
-
-
2642574393
-
Nuclear surveillance and degradation of hypomodified initiator tRNAMet in S. cerevisiae
-
Kadaba S., Krueger A., Trice T., Krecic A.M., Hinnebusch A.G., and Anderson J. Nuclear surveillance and degradation of hypomodified initiator tRNAMet in S. cerevisiae. Genes Dev. 18 (2004) 1227-1240
-
(2004)
Genes Dev.
, vol.18
, pp. 1227-1240
-
-
Kadaba, S.1
Krueger, A.2
Trice, T.3
Krecic, A.M.4
Hinnebusch, A.G.5
Anderson, J.6
-
11
-
-
33344476794
-
Nuclear RNA surveillance in Saccharomyces cerevisiae: Trf4p-dependent polyadenylation of nascent hypomethylated tRNA and an aberrant form of 5S rRNA
-
Kadaba S., Wang X., and Anderson J.T. Nuclear RNA surveillance in Saccharomyces cerevisiae: Trf4p-dependent polyadenylation of nascent hypomethylated tRNA and an aberrant form of 5S rRNA. RNA 12 (2006) 508-521
-
(2006)
RNA
, vol.12
, pp. 508-521
-
-
Kadaba, S.1
Wang, X.2
Anderson, J.T.3
-
12
-
-
33847234974
-
Pus3p- and Pus1p-dependent pseudouridylation of steroid receptor RNA activator controls a functional switch that regulates nuclear receptor signaling
-
Zhao X., Patton J.R., Ghosh S.K., Fischel-Ghodsian N., Shen L., and Spanjaard R.A. Pus3p- and Pus1p-dependent pseudouridylation of steroid receptor RNA activator controls a functional switch that regulates nuclear receptor signaling. Mol. Endocrinol. 21 (2007) 686-699
-
(2007)
Mol. Endocrinol.
, vol.21
, pp. 686-699
-
-
Zhao, X.1
Patton, J.R.2
Ghosh, S.K.3
Fischel-Ghodsian, N.4
Shen, L.5
Spanjaard, R.A.6
-
13
-
-
0037029086
-
Ribosomal RNA pseudouridines and pseudouridine synthases
-
Ofengand J. Ribosomal RNA pseudouridines and pseudouridine synthases. FEBS Lett. 514 (2002) 17-25
-
(2002)
FEBS Lett.
, vol.514
, pp. 17-25
-
-
Ofengand, J.1
-
14
-
-
0029832294
-
Identification of new RNA modifying enzymes by iterative genome search using known modifying enzymes as probes
-
Gustafsson C., Reid R., Greene P.J., and Santi D.V. Identification of new RNA modifying enzymes by iterative genome search using known modifying enzymes as probes. Nucleic Acids Res. 24 (1996) 3756-3762
-
(1996)
Nucleic Acids Res.
, vol.24
, pp. 3756-3762
-
-
Gustafsson, C.1
Reid, R.2
Greene, P.J.3
Santi, D.V.4
-
15
-
-
0029945504
-
Pseudouridine synthases: four families of enzymes containing a putative uridine-binding motif also conserved in dUTPases and dCTP deaminases
-
Koonin E.V. Pseudouridine synthases: four families of enzymes containing a putative uridine-binding motif also conserved in dUTPases and dCTP deaminases. Nucleic Acids Res. 24 (1996) 2411-2415
-
(1996)
Nucleic Acids Res.
, vol.24
, pp. 2411-2415
-
-
Koonin, E.V.1
-
16
-
-
33845984589
-
Substrate recognition by RNA 5-methyluridine methyltransferases and pseudouridine synthases: a structural perspective
-
Hur S., Stroud R.M., and Finer-Moore J. Substrate recognition by RNA 5-methyluridine methyltransferases and pseudouridine synthases: a structural perspective. J. Biol. Chem. 281 (2006) 38969-38973
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 38969-38973
-
-
Hur, S.1
Stroud, R.M.2
Finer-Moore, J.3
-
17
-
-
0036242429
-
Chips off the old block
-
Mueller E.G. Chips off the old block. Nat. Struct. Biol. 9 (2002) 320-322
-
(2002)
Nat. Struct. Biol.
, vol.9
, pp. 320-322
-
-
Mueller, E.G.1
-
18
-
-
0038475918
-
A novel unanticipated type of pseudouridine synthase with homologs in bacteria, archaea, and eukarya
-
Kaya Y., and Ofengand J. A novel unanticipated type of pseudouridine synthase with homologs in bacteria, archaea, and eukarya. Rna 9 (2003) 711-721
-
(2003)
Rna
, vol.9
, pp. 711-721
-
-
Kaya, Y.1
Ofengand, J.2
-
19
-
-
35148886286
-
Crystal structure of human Pus10, a novel pseudouridine synthase
-
McCleverty C.J., Hornsby M., Spraggon G., and Kreusch A. Crystal structure of human Pus10, a novel pseudouridine synthase. J. Mol. Biol. 373 (2007) 1243-1254
-
(2007)
J. Mol. Biol.
, vol.373
, pp. 1243-1254
-
-
McCleverty, C.J.1
Hornsby, M.2
Spraggon, G.3
Kreusch, A.4
-
20
-
-
0032506248
-
Identification of two Escherichia coli pseudouridine synthases that show multisite specificity for 23S RNA
-
Huang L., Ku J., Pookanjanatavip M., Gu X., Wang D., Greene P.J., and Santi D.V. Identification of two Escherichia coli pseudouridine synthases that show multisite specificity for 23S RNA. Biochemistry 37 (1998) 15951-15957
-
(1998)
Biochemistry
, vol.37
, pp. 15951-15957
-
-
Huang, L.1
Ku, J.2
Pookanjanatavip, M.3
Gu, X.4
Wang, D.5
Greene, P.J.6
Santi, D.V.7
-
21
-
-
0023851755
-
Purification, structure, and properties of Escherichia coli tRNA pseudouridine synthase I
-
Kammen H.O., Marvel C.C., Hardy L., and Penhoet E.E. Purification, structure, and properties of Escherichia coli tRNA pseudouridine synthase I. J. Biol. Chem. 263 (1988) 2255-2263
-
(1988)
J. Biol. Chem.
, vol.263
, pp. 2255-2263
-
-
Kammen, H.O.1
Marvel, C.C.2
Hardy, L.3
Penhoet, E.E.4
-
22
-
-
0035163770
-
Identification and site of action of the remaining four putative pseudouridine synthases in Escherichia coli
-
Del Campo M., Kaya Y., and Ofengand J. Identification and site of action of the remaining four putative pseudouridine synthases in Escherichia coli. RNA 7 (2001) 1603-1615
-
(2001)
RNA
, vol.7
, pp. 1603-1615
-
-
Del Campo, M.1
Kaya, Y.2
Ofengand, J.3
-
23
-
-
33751013845
-
Crystal structure of pseudouridine synthase RluA: indirect sequence readout through protein-induced RNA structure
-
Hoang C., Chen J., Vizthum C.A., Kandel J.M., Hamilton C.S., Mueller E.G., and Ferre-D'Amare A.R. Crystal structure of pseudouridine synthase RluA: indirect sequence readout through protein-induced RNA structure. Mol. Cell 24 (2006) 535-545
-
(2006)
Mol. Cell
, vol.24
, pp. 535-545
-
-
Hoang, C.1
Chen, J.2
Vizthum, C.A.3
Kandel, J.M.4
Hamilton, C.S.5
Mueller, E.G.6
Ferre-D'Amare, A.R.7
-
24
-
-
0035966271
-
Cocrystal structure of a tRNA Psi55 pseudouridine synthase: nucleotide flipping by an RNA-modifying enzyme
-
Hoang C., and Ferre-D'Amare A.R. Cocrystal structure of a tRNA Psi55 pseudouridine synthase: nucleotide flipping by an RNA-modifying enzyme. Cell 107 (2001) 929-939
-
(2001)
Cell
, vol.107
, pp. 929-939
-
-
Hoang, C.1
Ferre-D'Amare, A.R.2
-
25
-
-
34247199024
-
How U38, 39, and 40 of many tRNAs become the targets for pseudouridylation by TruA
-
Hur S., and Stroud R.M. How U38, 39, and 40 of many tRNAs become the targets for pseudouridylation by TruA. Mol. Cell 26 (2007) 189-203
-
(2007)
Mol. Cell
, vol.26
, pp. 189-203
-
-
Hur, S.1
Stroud, R.M.2
-
26
-
-
0242331664
-
Structure of tRNA pseudouridine synthase TruB and its RNA complex: RNA recognition through a combination of rigid docking and induced fit
-
Pan H., Agarwalla S., Moustakas D.T., Finer-Moore J., and Stroud R.M. Structure of tRNA pseudouridine synthase TruB and its RNA complex: RNA recognition through a combination of rigid docking and induced fit. Proc. Natl Acad. Sci. USA 100 (2003) 12648-12653
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 12648-12653
-
-
Pan, H.1
Agarwalla, S.2
Moustakas, D.T.3
Finer-Moore, J.4
Stroud, R.M.5
-
27
-
-
2542578632
-
Conformational change of pseudouridine 55 synthase upon its association with RNA substrate
-
Phannachet K., and Huang R.H. Conformational change of pseudouridine 55 synthase upon its association with RNA substrate. Nucleic Acids Res. 32 (2004) 1422-1429
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1422-1429
-
-
Phannachet, K.1
Huang, R.H.2
-
28
-
-
44349185734
-
Structure of a TrmA-RNA complex: a consensus RNA fold contributes to substrate selectivity and catalysis in m5U methyltransferases
-
Alian A., Lee T.T., Griner S.L., Stroud R.M., and Finer-Moore J. Structure of a TrmA-RNA complex: a consensus RNA fold contributes to substrate selectivity and catalysis in m5U methyltransferases. Proc. Natl Acad. Sci. USA 105 (2008) 6876-6881
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 6876-6881
-
-
Alian, A.1
Lee, T.T.2
Griner, S.L.3
Stroud, R.M.4
Finer-Moore, J.5
-
29
-
-
0038613099
-
Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme
-
Ishitani R., Nureki O., Nameki N., Okada N., Nishimura S., and Yokoyama S. Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme. Cell 113 (2003) 383-394
-
(2003)
Cell
, vol.113
, pp. 383-394
-
-
Ishitani, R.1
Nureki, O.2
Nameki, N.3
Okada, N.4
Nishimura, S.5
Yokoyama, S.6
-
30
-
-
14844293080
-
A unique RNA fold in the RumA-RNA-cofactor ternary complex contributes to substrate selectivity and enzymatic function
-
Lee T.T., Agarwalla S., and Stroud R.M. A unique RNA fold in the RumA-RNA-cofactor ternary complex contributes to substrate selectivity and enzymatic function. Cell 120 (2005) 599-611
-
(2005)
Cell
, vol.120
, pp. 599-611
-
-
Lee, T.T.1
Agarwalla, S.2
Stroud, R.M.3
-
31
-
-
55849083574
-
Crystallographic snapshots of eukaryotic dimethylallyltransferase acting on tRNA: insight into tRNA recognition and reaction mechanism
-
Zhou C., and Huang R.H. Crystallographic snapshots of eukaryotic dimethylallyltransferase acting on tRNA: insight into tRNA recognition and reaction mechanism. Proc. Natl Acad. Sci. USA 105 (2008) 16142-16147
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 16142-16147
-
-
Zhou, C.1
Huang, R.H.2
-
32
-
-
48449095385
-
The Vienna RNA websuite
-
Gruber A.R., Lorenz R., Bernhart S.H., Neubock R., and Hofacker I.L. The Vienna RNA websuite. Nucleic Acids Res. 36 (2008) W70-W74
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Gruber, A.R.1
Lorenz, R.2
Bernhart, S.H.3
Neubock, R.4
Hofacker, I.L.5
-
33
-
-
0028010888
-
HhaI methyltransferase flips its target base out of the DNA helix
-
Klimasauskas S., Kumar S., Roberts R.J., and Cheng X. HhaI methyltransferase flips its target base out of the DNA helix. Cell 76 (1994) 357-369
-
(1994)
Cell
, vol.76
, pp. 357-369
-
-
Klimasauskas, S.1
Kumar, S.2
Roberts, R.J.3
Cheng, X.4
-
34
-
-
38849207616
-
Extrahelical damaged base recognition by DNA glycosylase enzymes
-
Stivers J.T. Extrahelical damaged base recognition by DNA glycosylase enzymes. Chemistry 14 (2008) 786-793
-
(2008)
Chemistry
, vol.14
, pp. 786-793
-
-
Stivers, J.T.1
-
35
-
-
0033435203
-
The mechanism of pseudouridine synthase I as deduced from its interaction with 5-fluorouracil-tRNA
-
Gu X., Liu Y., and Santi D.V. The mechanism of pseudouridine synthase I as deduced from its interaction with 5-fluorouracil-tRNA. Proc. Natl. Acad. Sci. USA 96 (1999) 14270-14275
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 14270-14275
-
-
Gu, X.1
Liu, Y.2
Santi, D.V.3
-
36
-
-
0032488657
-
A conserved aspartate of tRNA pseudouridine synthase is essential for activity and a probable nucleophilic catalyst
-
Huang L., Pookanjanatavip M., Gu X., and Santi D.V. A conserved aspartate of tRNA pseudouridine synthase is essential for activity and a probable nucleophilic catalyst. Biochemistry 37 (1998) 344-351
-
(1998)
Biochemistry
, vol.37
, pp. 344-351
-
-
Huang, L.1
Pookanjanatavip, M.2
Gu, X.3
Santi, D.V.4
-
37
-
-
33744920298
-
Domain organization and crystal structure of the catalytic domain of E. coli RluF, a pseudouridine synthase that acts on 23S rRNA
-
Sunita S., Zhenxing H., Swaathi J., Cygler M., Matte A., and Sivaraman J. Domain organization and crystal structure of the catalytic domain of E. coli RluF, a pseudouridine synthase that acts on 23S rRNA. J. Mol. Biol. 359 (2006) 998-1009
-
(2006)
J. Mol. Biol.
, vol.359
, pp. 998-1009
-
-
Sunita, S.1
Zhenxing, H.2
Swaathi, J.3
Cygler, M.4
Matte, A.5
Sivaraman, J.6
-
38
-
-
0032541495
-
The crystal structure of ribosomal protein S4 reveals a two-domain molecule with an extensive RNA-binding surface: one domain shows structural homology to the ETS DNA-binding motif
-
Davies C., Gerstner R.B., Draper D.E., Ramakrishnan V., and White S.W. The crystal structure of ribosomal protein S4 reveals a two-domain molecule with an extensive RNA-binding surface: one domain shows structural homology to the ETS DNA-binding motif. EMBO J. 17 (1998) 4545-4558
-
(1998)
EMBO J.
, vol.17
, pp. 4545-4558
-
-
Davies, C.1
Gerstner, R.B.2
Draper, D.E.3
Ramakrishnan, V.4
White, S.W.5
-
39
-
-
0036242421
-
Structure of the 16S rRNA pseudouridine synthase RsuA bound to uracil and UMP
-
Sivaraman J., Sauve V., Larocque R., Stura E.A., Schrag J.D., Cygler M., and Matte A. Structure of the 16S rRNA pseudouridine synthase RsuA bound to uracil and UMP. Nat. Struct. Biol. 9 (2002) 353-358
-
(2002)
Nat. Struct. Biol.
, vol.9
, pp. 353-358
-
-
Sivaraman, J.1
Sauve, V.2
Larocque, R.3
Stura, E.A.4
Schrag, J.D.5
Cygler, M.6
Matte, A.7
-
40
-
-
27644491082
-
Structures of the bacterial ribosome at 3.5 Å resolution
-
Schuwirth B.S., Borovinskaya M.A., Hau C.W., Zhang W., Vila-Sanjurjo A., Holton J.M., and Cate J.H. Structures of the bacterial ribosome at 3.5 Å resolution. Science 310 (2005) 827-834
-
(2005)
Science
, vol.310
, pp. 827-834
-
-
Schuwirth, B.S.1
Borovinskaya, M.A.2
Hau, C.W.3
Zhang, W.4
Vila-Sanjurjo, A.5
Holton, J.M.6
Cate, J.H.7
-
41
-
-
28244473650
-
Dissecting the roles of a strictly conserved tyrosine in substrate recognition and catalysis by pseudouridine 55 synthase
-
Phannachet K., Elias Y., and Huang R.H. Dissecting the roles of a strictly conserved tyrosine in substrate recognition and catalysis by pseudouridine 55 synthase. Biochemistry 44 (2005) 15488-15494
-
(2005)
Biochemistry
, vol.44
, pp. 15488-15494
-
-
Phannachet, K.1
Elias, Y.2
Huang, R.H.3
-
42
-
-
23644435149
-
Precursor complex structure of pseudouridine synthase TruB suggests coupling of active site perturbations to an RNA-sequestering peripheral protein domain
-
Hoang C., Hamilton C.S., Mueller E.G., and Ferre-D'Amare A.R. Precursor complex structure of pseudouridine synthase TruB suggests coupling of active site perturbations to an RNA-sequestering peripheral protein domain. Protein Sci. 14 (2005) 2201-2206
-
(2005)
Protein Sci.
, vol.14
, pp. 2201-2206
-
-
Hoang, C.1
Hamilton, C.S.2
Mueller, E.G.3
Ferre-D'Amare, A.R.4
-
43
-
-
33750488430
-
Structural basis for mRNA and tRNA positioning on the ribosome
-
Berk V., Zhang W., Pai R.D., and Cate J.H. Structural basis for mRNA and tRNA positioning on the ribosome. Proc. Natl Acad. Sci. USA 103 (2006) 15830-15834
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 15830-15834
-
-
Berk, V.1
Zhang, W.2
Pai, R.D.3
Cate, J.H.4
-
44
-
-
1642580818
-
Crystal structure of the catalytic domain of RluD, the only rRNA pseudouridine synthase required for normal growth of Escherichia coli
-
Del Campo M., Ofengand J., and Malhotra A. Crystal structure of the catalytic domain of RluD, the only rRNA pseudouridine synthase required for normal growth of Escherichia coli. RNA 10 (2004) 231-239
-
(2004)
RNA
, vol.10
, pp. 231-239
-
-
Del Campo, M.1
Ofengand, J.2
Malhotra, A.3
-
45
-
-
9744240603
-
Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli
-
Mizutani K., Machida Y., Unzai S., Park S.Y., and Tame J.R. Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli. Biochemistry 43 (2004) 4454-4463
-
(2004)
Biochemistry
, vol.43
, pp. 4454-4463
-
-
Mizutani, K.1
Machida, Y.2
Unzai, S.3
Park, S.Y.4
Tame, J.R.5
-
46
-
-
0344687349
-
Crystal structure of the RluD pseudouridine synthase catalytic module, an enzyme that modifies 23S rRNA and is essential for normal cell growth of Escherichia coli
-
Sivaraman J., Iannuzzi P., Cygler M., and Matte A. Crystal structure of the RluD pseudouridine synthase catalytic module, an enzyme that modifies 23S rRNA and is essential for normal cell growth of Escherichia coli. J. Mol. Biol. 335 (2004) 87-101
-
(2004)
J. Mol. Biol.
, vol.335
, pp. 87-101
-
-
Sivaraman, J.1
Iannuzzi, P.2
Cygler, M.3
Matte, A.4
-
47
-
-
0025311258
-
Structure, multiple site binding, and segmental accommodation in thymidylate synthase on binding dUMP and an anti-folate
-
Montfort W.R., Perry K.M., Fauman E.B., Finer-Moore J.S., Maley G.F., Hardy L., et al. Structure, multiple site binding, and segmental accommodation in thymidylate synthase on binding dUMP and an anti-folate. Biochemistry 29 (1990) 6964-6977
-
(1990)
Biochemistry
, vol.29
, pp. 6964-6977
-
-
Montfort, W.R.1
Perry, K.M.2
Fauman, E.B.3
Finer-Moore, J.S.4
Maley, G.F.5
Hardy, L.6
-
48
-
-
0025615583
-
Plastic adaptation toward mutations in proteins: structural comparison of thymidylate synthases
-
Perry K.M., Fauman E.B., Finer-Moore J.S., Montfort W.R., Maley G.F., Maley F., and Stroud R.M. Plastic adaptation toward mutations in proteins: structural comparison of thymidylate synthases. Proteins 8 (1990) 315-333
-
(1990)
Proteins
, vol.8
, pp. 315-333
-
-
Perry, K.M.1
Fauman, E.B.2
Finer-Moore, J.S.3
Montfort, W.R.4
Maley, G.F.5
Maley, F.6
Stroud, R.M.7
-
49
-
-
0015949278
-
Comparison of homologous tertiary structure of proteins
-
Nishikawa K., and Ooi T. Comparison of homologous tertiary structure of proteins. J. Theor. Biol 43 (1974) 351-374
-
(1974)
J. Theor. Biol
, vol.43
, pp. 351-374
-
-
Nishikawa, K.1
Ooi, T.2
-
50
-
-
2642517964
-
Crystal structure of the apo forms of psi 55 tRNA pseudouridine synthase from Mycobacterium tuberculosis: a hinge at the base of the catalytic cleft
-
Chaudhuri B.N., Chan S., Perry L.J., and Yeates T.O. Crystal structure of the apo forms of psi 55 tRNA pseudouridine synthase from Mycobacterium tuberculosis: a hinge at the base of the catalytic cleft. J. Biol. Chem. 279 (2004) 24585-24591
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 24585-24591
-
-
Chaudhuri, B.N.1
Chan, S.2
Perry, L.J.3
Yeates, T.O.4
-
51
-
-
33947176022
-
The crystal structure of E. coli rRNA pseudouridine synthase RluE
-
Pan H., Ho J.D., Stroud R.M., and Finer-Moore J. The crystal structure of E. coli rRNA pseudouridine synthase RluE. J. Mol. Biol. 367 (2007) 1459-1470
-
(2007)
J. Mol. Biol.
, vol.367
, pp. 1459-1470
-
-
Pan, H.1
Ho, J.D.2
Stroud, R.M.3
Finer-Moore, J.4
-
52
-
-
0035132230
-
Anisotropy of fluctuation dynamics of proteins with an elastic network model
-
Atilgan A.R., Durell S.R., Jernigan R.L., Demirel M.C., Keskin O., and Bahar I. Anisotropy of fluctuation dynamics of proteins with an elastic network model. Biophys. J. 80 (2001) 505-515
-
(2001)
Biophys. J.
, vol.80
, pp. 505-515
-
-
Atilgan, A.R.1
Durell, S.R.2
Jernigan, R.L.3
Demirel, M.C.4
Keskin, O.5
Bahar, I.6
-
53
-
-
0030623823
-
Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential
-
Bahar I., Atilgan A.R., and Erman B. Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential. Fold Des. 2 (1997) 173-181
-
(1997)
Fold Des.
, vol.2
, pp. 173-181
-
-
Bahar, I.1
Atilgan, A.R.2
Erman, B.3
-
54
-
-
30844438338
-
Structural basis for double-stranded RNA processing by Dicer
-
Macrae I.J., Zhou K., Li F., Repic A., Brooks A.N., Cande W.Z., et al. Structural basis for double-stranded RNA processing by Dicer. Science 311 (2006) 195-198
-
(2006)
Science
, vol.311
, pp. 195-198
-
-
Macrae, I.J.1
Zhou, K.2
Li, F.3
Repic, A.4
Brooks, A.N.5
Cande, W.Z.6
-
55
-
-
33646538487
-
RNA recognition and cleavage by a splicing endonuclease
-
Xue S., Calvin K., and Li H. RNA recognition and cleavage by a splicing endonuclease. Science 312 (2006) 906-910
-
(2006)
Science
, vol.312
, pp. 906-910
-
-
Xue, S.1
Calvin, K.2
Li, H.3
-
56
-
-
33646813662
-
Nucleotide flips determine the specificity of the Ecl18kI restriction endonuclease
-
Bochtler M., Szczepanowski R.H., Tamulaitis G., Grazulis S., Czapinska H., Manakova E., and Siksnys V. Nucleotide flips determine the specificity of the Ecl18kI restriction endonuclease. EMBO J. 25 (2006) 2219-2229
-
(2006)
EMBO J.
, vol.25
, pp. 2219-2229
-
-
Bochtler, M.1
Szczepanowski, R.H.2
Tamulaitis, G.3
Grazulis, S.4
Czapinska, H.5
Manakova, E.6
Siksnys, V.7
-
57
-
-
0033591465
-
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
-
Mathews D.H., Sabina J., Zuker M., and Turner D.H. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J. Mol. Biol. 288 (1999) 911-940
-
(1999)
J. Mol. Biol.
, vol.288
, pp. 911-940
-
-
Mathews, D.H.1
Sabina, J.2
Zuker, M.3
Turner, D.H.4
-
58
-
-
0019876473
-
Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
-
Zuker M., and Stiegler P. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Res. 9 (1981) 133-148
-
(1981)
Nucleic Acids Res.
, vol.9
, pp. 133-148
-
-
Zuker, M.1
Stiegler, P.2
-
59
-
-
35548946655
-
RluD, a highly conserved pseudouridine synthase, modifies 50S subunits more specifically and efficiently than free 23S rRNA
-
Vaidyanathan P.P., Deutscher M.P., and Malhotra A. RluD, a highly conserved pseudouridine synthase, modifies 50S subunits more specifically and efficiently than free 23S rRNA. RNA 13 (2007) 1868-1876
-
(2007)
RNA
, vol.13
, pp. 1868-1876
-
-
Vaidyanathan, P.P.1
Deutscher, M.P.2
Malhotra, A.3
-
60
-
-
41349118107
-
Complex riboswitches
-
Breaker R.R. Complex riboswitches. Science 319 (2008) 1795-1797
-
(2008)
Science
, vol.319
, pp. 1795-1797
-
-
Breaker, R.R.1
-
61
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
Otwinowski Z., and Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276 (1997) 307-326
-
(1997)
Methods Enzymol.
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
62
-
-
34447508216
-
Phaser crystallographic software
-
McCoy A.J., Grosse-Kunstleve R.W., Adams P.D., Winn M.D., Storoni L.C., and Read R.J. Phaser crystallographic software. J. Appl. Crystallogr. 40 (2007) 658-674
-
(2007)
J. Appl. Crystallogr.
, vol.40
, pp. 658-674
-
-
McCoy, A.J.1
Grosse-Kunstleve, R.W.2
Adams, P.D.3
Winn, M.D.4
Storoni, L.C.5
Read, R.J.6
-
63
-
-
0000082544
-
CHAIN-a crystallographic modelling program
-
Sack J.S. CHAIN-a crystallographic modelling program. J. Mol. Graphics 6 (1988) 244-245
-
(1988)
J. Mol. Graphics
, vol.6
, pp. 244-245
-
-
Sack, J.S.1
-
65
-
-
0000560808
-
MOLREP: an automated program for molecular replacement
-
Vagin A., and Teplyakov A. MOLREP: an automated program for molecular replacement. J. Appl. Crystallogr. 30 (1997) 1022-1025
-
(1997)
J. Appl. Crystallogr.
, vol.30
, pp. 1022-1025
-
-
Vagin, A.1
Teplyakov, A.2
-
66
-
-
3543012707
-
Crystallography & NMR system: a new software suite for macromolecular structure determination
-
Brunger A.T., Adams P.D., Clore G.M., DeLano W.L., Gros P., Grosse-Kunstleve R.W., et al. Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr., Sect. D: Biol. Crystallogr. 54 Pt 5 (1998) 905-921
-
(1998)
Acta Crystallogr., Sect. D: Biol. Crystallogr.
, vol.54
, Issue.PART 5
, pp. 905-921
-
-
Brunger, A.T.1
Adams, P.D.2
Clore, G.M.3
DeLano, W.L.4
Gros, P.5
Grosse-Kunstleve, R.W.6
|