-
2
-
-
33644875540
-
MODOMICS: A database of RNA modification pathways
-
(Database issue) doi:10.1093/nar/gkj084
-
Dunin-Horkawicz S, Czerwoniec A, Gajda MJ, Feder M, Grosjean H, Bujnicki JM (2006) MODOMICS: a database of RNA modification pathways. Nucleic Acids Res 34(Database issue):D145-D149. doi:10.1093/nar/gkj084
-
(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
-
3
-
-
0027536869
-
Temperature-sensitive mutations demonstrate roles for yeast fibrillarin in pre-rRNA processing, pre-rRNA methylation, and ribosome assembly
-
DOI 10.1016/0092-8674(93)90120-F
-
Tollervey D, Lehtonen H, Jansen R, Kern H, Hurt EC (1993) Temperature-sensitive mutations demonstrate roles for yeast fibrillarin in pre-rRNA processing, pre-rRNA methylation, and ribosome assembly. Cell 72(3):443-457. doi:10.1016/0092-8674(93)90120-F (Pubitemid 23059413)
-
(1993)
Cell
, vol.72
, Issue.3
, pp. 443-457
-
-
Tollervey, D.1
Lehtonen, H.2
Jansen, R.3
Kern, H.4
Hurt, E.C.5
-
4
-
-
0037413674
-
Molecular phylogenetics of the RrmJ/fibrillarin superfamily of ribose 2-O-methyltransferases
-
DOI 10.1016/S0378-1119(02)01097-1
-
Feder M, Pas J, Wyrwicz LS, Bujnicki JM (2003) Molecular phylogenetics of the RrmJ/fibrillarin superfamily of ribose 2′-O-methyltransferases. Gene 302(1-2):129-138. doi:10.1016/S0378-1119(02)01097-1 (Pubitemid 36078404)
-
(2003)
Gene
, vol.302
, Issue.1-2
, pp. 129-138
-
-
Feder, M.1
Pas, J.2
Wyrwicz, L.S.3
Bujnicki, J.M.4
-
5
-
-
0037007220
-
Trm7p catalyses the formation of two 2-O-methylriboses in yeast tRNA anticodon loop
-
DOI 10.1093/emboj/21.7.1811
-
Pintard L, Lecointe F, Bujnicki JM, Bonnerot C, Grosjean H, Lapeyre B (2002) Trm7p catalyses the formation of two 2′-O-methylriboses in yeast tRNA anticodon loop. EMBO J 21 (7):1811-1820. doi:10.1093/emboj/21.7.1811 (Pubitemid 34614637)
-
(2002)
EMBO Journal
, 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
-
6
-
-
0036500548
-
MRM2 encodes a novel yeast mitochondrial 21s rRNA methyltransferase
-
DOI 10.1093/emboj/21.5.1139
-
Pintard L, Bujnicki JM, Lapeyre B, Bonnerot C (2002) MRM2 encodes a novel yeast mitochondrial 21 S rRNA methyltransferase. EMBO J 21(5):1139-1147. doi:10.1093/emboj/21.5.1139 (Pubitemid 34206187)
-
(2002)
EMBO Journal
, vol.21
, Issue.5
, pp. 1139-1147
-
-
Pintard, L.1
Bujnicki, J.M.2
Lapeyre, B.3
Bonnerot, C.4
-
7
-
-
34648820435
-
Structural and evolutionary bioinformatics of the SPOUT super-family of methyltransferases
-
doi:10.1186/1471-2105-8-73
-
Tkaczuk KL, Dunin-Horkawicz S, Purta E, Bujnicki JM (2007) Structural and evolutionary bioinformatics of the SPOUT super-family of methyltransferases. BMC Bioinformatics 8:73. doi:10.1186/1471-2105-8-73
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 73
-
-
Tkaczuk, K.L.1
Dunin-Horkawicz, S.2
Purta, E.3
Bujnicki, J.M.4
-
8
-
-
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 (1999) The yeast Saccharomyces cerevisiae YDL112w ORF encodes the putative 2′-O-ribose methyltransferase catalyzing the formation of Gm18 in tRNAs. RNA 5(1):66-81
-
(1999)
RNA
, vol.5
, Issue.1
, pp. 66-81
-
-
Cavaille, J.1
Chetouani, F.2
Bachellerie, J.P.3
-
9
-
-
8844219672
-
2922 in the ribosome catalytic center occurs at a late processing stage
-
DOI 10.1016/j.molcel.2004.10.022, PII S1097276504006483
-
Lapeyre B, Purushothaman SK (2004) Spb1p-directed formation of Gm2922 in the ribosome catalytic center occurs at a late processing stage. Mol Cell 16:663-669. doi:10.1016/j.molcel.2004.10.022 (Pubitemid 39531888)
-
(2004)
Molecular Cell
, vol.16
, Issue.4
, pp. 663-669
-
-
Lapeyre, B.1
Purushothaman, S.K.2
-
10
-
-
22244449849
-
Two different mechanisms for tRNA ribose methylation in Archaea: A short survey
-
DOI 10.1016/j.biochi.2005.02.004, PII S0300908405000349, Facets of the RNA World
-
Clouet-d'Orval B, Gaspin C, Mougin A (2005) Two different mechanisms for tRNA ribose methylation in Archaea: a short survey. Biochimie 87:889-895. doi:10.1016/j.biochi.2005.02.004 (Pubitemid 41297815)
-
(2005)
Biochimie
, vol.87
, Issue.9-10
, pp. 889-895
-
-
Clouet-D'Orval, B.1
Gaspin, C.2
Mougin, A.3
-
11
-
-
33748711082
-
The yfhQ gene of Escherichia coli encodes a tRNA:Cm32/Um32 methyltransferase
-
DOI 10.1186/1471-2199-7-23
-
Purta E, van Vliet F, Tkaczuk KL, Dunin-Horkawicz S, Mori H, Droogmans L, Bujnicki JM (2006) The yfhQ gene of Escherichia coli encodes a tRNA:Cm32/Um32 methyltransferase. BMC Mol Biol 7:23. doi:10.1186/1471-2199-7-23 (Pubitemid 44390006)
-
(2006)
BMC Molecular Biology
, vol.7
, pp. 23
-
-
Purta, E.1
Van Vliet, F.2
Tkaczuk, K.L.3
Dunin-Horkawicz, S.4
Mori, H.5
Droogmans, L.6
Bujnicki, J.M.7
-
12
-
-
33847290869
-
The 2-O-methyltransferase responsible for modification of yeast tRNA at position 4
-
DOI 10.1261/rna.399607
-
Wilkinson ML, Crary SM, Jackman JE, Grayhack EJ, Phizicky EM (2007) The 2′-O-methyltransferase responsible for modification of yeast tRNA at position 4. RNA 13:404-413. doi:10.1261/rna. 399607 (Pubitemid 46327543)
-
(2007)
RNA
, vol.13
, Issue.3
, pp. 404-413
-
-
Wilkinson, M.L.1
Crary, S.M.2
Jackman, J.E.3
Grayhack, E.J.4
Phizicky, E.M.5
-
13
-
-
0038374971
-
Many paths to methyltransfer: A chronicle of convergence
-
DOI 10.1016/S0968-0004(03)00090-2
-
Schubert HL, Blumenthal RM, Cheng X (2003) Many paths to methyltransfer: a chronicle of convergence. Trends Biochem Sci 28:329-335. doi:10.1016/S0968- 0004(03)00090-2 (Pubitemid 36776296)
-
(2003)
Trends in Biochemical Sciences
, vol.28
, Issue.6
, pp. 329-335
-
-
Schubert, H.L.1
Blumenthal, R.M.2
Cheng, X.3
-
14
-
-
27844530636
-
Natural history of S-adenosylmethionine-binding proteins
-
DOI 10.1186/1472-6807-5-19
-
Kozbial PZ, Mushegian AR (2005) Natural history of Sadenosylmethionine- binding proteins. BMC Struct Biol 5:19. doi:10.1186/1472-6807-5-19 (Pubitemid 41637785)
-
(2005)
BMC Structural Biology
, vol.5
, pp. 19
-
-
Kozbial, P.Z.1
Mushegian, A.R.2
-
15
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
DOI 10.1093/nar/25.17.3389
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389-3402. doi:10.1093/nar/25.17.3389 (Pubitemid 27359211)
-
(1997)
Nucleic Acids Research
, 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
-
16
-
-
0043123216
-
GeneSilico protein structure prediction meta-server
-
DOI 10.1093/nar/gkg557
-
Kurowski MA, Bujnicki JM (2003) GeneSilico protein structure prediction meta-server. Nucleic Acids Res 31:3305-3307. doi:10.1093/nar/gkg557 (Pubitemid 37442145)
-
(2003)
Nucleic Acids Research
, vol.31
, Issue.13
, pp. 3305-3307
-
-
Kurowski, M.A.1
Bujnicki, J.M.2
-
17
-
-
0034780030
-
Pcons: A neural-network - Based consensus predictor that improves fold recognition
-
DOI 10.1110/ps.08501
-
Lundstrom J, Rychlewski L, Bujnicki J, Elofsson A (2001) Pcons: a neural-network-based consensus predictor that improves fold recognition. Protein Sci 10:2354-2362. doi:10.1110/ps.08501 (Pubitemid 32988651)
-
(2001)
Protein Science
, vol.10
, Issue.11
, pp. 2354-2362
-
-
Lundstrom, J.1
Rychlewski, L.2
Bujnicki, J.3
Elofsson, A.4
-
18
-
-
30344466041
-
FRankenstein becomes a cyborg: The automatic recombination and realignment of fold recognition models in CASP6
-
DOI 10.1002/prot.20726
-
Kosinski J, Gajda MJ, Cymerman IA, Kurowski MA, Pawlowski M, Boniecki M, Obarska A, Papaj G, Sroczynska-Obuchowicz P, Tkaczuk KL et al (2005) FRankenstein becomes a cyborg: the automatic recombination and realignment of fold recognition models in CASP6. Proteins 61(Suppl 7):106-113. doi:10.1002/prot.20726 (Pubitemid 43069963)
-
(2005)
Proteins: Structure, Function and Genetics
, vol.61
, Issue.SUPPL. 7
, pp. 106-113
-
-
Kosinski, J.1
Gajda, M.J.2
Cymerman, I.A.3
Kurowski, M.A.4
Pawlowski, H.5
Boniecki, M.6
Obarska, A.7
Papaj, G.8
Sroczynska-Obuchowicz, P.9
Tkaczuk, K.L.10
Sniezynska, P.11
Sasin, J.M.12
Augustyn, A.13
Bujnicki, J.M.14
Feder, M.15
-
19
-
-
0031585984
-
Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions
-
doi:0022-2836/97/160209-17$25.00/0/mb970959
-
Simons KT, Kooperberg C, Huang E, Baker D (1997) Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions. J Mol Biol 268(1):209-225. doi:0022-2836/97/160209-17$25.00/0/mb970959
-
(1997)
J Mol Biol
, vol.268
, Issue.1
, pp. 209-225
-
-
Simons, K.T.1
Kooperberg, C.2
Huang, E.3
Baker, D.4
-
20
-
-
0242330730
-
Assessment of homology-based predictions in CASP5
-
doi:10.1002/prot.20187
-
Tramontano A, Morea V (2003) Assessment of homology-based predictions in CASP5. Proteins 53(Suppl 6):352-368. doi:10.1002/prot.20187
-
(2003)
Proteins
, vol.53
, Issue.SUPPL. 6
, pp. 352-368
-
-
Tramontano, A.1
Morea, V.2
-
22
-
-
0012588361
-
RNA: (guanine-N2) methyltransferases RsmC/RsmD and their homologs revisited - Bioinformatic analysis and prediction of the active site based on the uncharacterized Mj0882 protein structure
-
DOI 10.1186/1471-2105-3-10
-
Bujnicki JM, Rychlewski L (2002) RNA:(guanine-N2) methyl transferases RsmC/RsmD and their homologs revisited-bioinformatic analysis and prediction of the active site based on the uncharacterized Mj0882 protein structure. BMC Bioinformatics 3(1):10. doi:10.1186/1471-2105-3-10 (Pubitemid 38751194)
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 10
-
-
Bujnicki, J.M.1
Rychlewski, L.2
-
23
-
-
17944373789
-
7G46) methyltransferase studied by homology modeling and site-directed mutagenesis
-
DOI 10.1002/prot.20454
-
Purta E, van Vliet F, Tricot C, De Bie LG, Feder M, Skowronek K, Droogmans L, Bujnicki JM (2005) Sequence-structure-function relationships of a tRNA (m(7)G46) methyltransferase studied by homology modeling and site-directed mutagenesis. Proteins 59(3):482-488. doi:10.1002/prot.20454 (Pubitemid 40598104)
-
(2005)
Proteins: Structure, Function and Genetics
, vol.59
, Issue.3
, pp. 482-488
-
-
Purta, E.1
Van Vliet, F.2
Tricot, C.3
De Bie, L.G.4
Feder, M.5
Skowronek, K.6
Droogmans, L.7
Bujnicki, J.M.8
-
24
-
-
1642482865
-
Structure and Mechanism of mRNA Cap (Guanine-N7) Methyltransferase
-
DOI 10.1016/S1097-2765(03)00522-7
-
Fabrega C, Hausmann S, Shen V, Shuman S, Lima CD (2004) Structure and mechanism of mRNA cap (guanine-N7) methyl transferase. Mol Cell 13(1):77-89. doi:10.1016/S1097-2765(03) 00522-7 (Pubitemid 38117117)
-
(2004)
Molecular Cell
, vol.13
, Issue.1
, pp. 77-89
-
-
Fabrega, C.1
Hausmann, S.2
Shen, V.3
Shuman, S.4
Lima, C.D.5
-
25
-
-
34547829268
-
Functional specialization of domains tandemly duplicated within 16S rRNA methyltransferase RsmC
-
DOI 10.1093/nar/gkm411
-
Sunita S, Purta E, Durawa M, Tkaczuk KL, Swaathi J, Bujnicki JM, Sivaraman J (2007) Functional specialization of domains tandemly duplicated within 16 S rRNA methyltransferase RsmC. Nucleic Acids Res 35(13):4264-4274. doi:10.1093/nar/gkm411 (Pubitemid 47244581)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.13
, pp. 4264-4274
-
-
Sunita, S.1
Purta, E.2
Durawa, M.3
Tkaczuk, K.L.4
Swaathi, J.5
Bujnicki, J.M.6
Sivaraman, J.7
-
26
-
-
33645862584
-
Crystal structure of bacillus subtilis TrmB, the tRNA (m7G46) methyltransferase
-
doi:10.1093/nar/gkl116
-
Zegers I, Gigot D, van Vliet F, Tricot C, Aymerich S, Bujnicki JM, Kosinski J, Droogmans L (2006) Crystal structure of Bacillus subtilis TrmB, the tRNA (m7G46) methyltransferase. Nucleic Acids Res 34(6):1925-1934. doi:10.1093/nar/gkl116
-
(2006)
Nucleic Acids Res
, vol.34
, Issue.6
, pp. 1925-1934
-
-
Zegers, I.1
Gigot, D.2
Van Vliet, F.3
Tricot, C.4
Aymerich, S.5
Bujnicki, J.M.6
Kosinski, J.7
Droogmans, L.8
-
27
-
-
30344483607
-
Free modeling with Rosetta in CASP6
-
DOI 10.1002/prot.20729
-
Bradley P, Malmstrom L, Qian B, Schonbrun J, Chivian D, Kim DE, Meiler J, Misura KM, Baker D (2005) Free modeling with Rosetta in CASP6. Proteins 61:128-134. doi:10.1002/prot.20729 (Pubitemid 43069966)
-
(2005)
Proteins: Structure, Function and Genetics
, vol.61
, Issue.SUPPL. 7
, pp. 128-134
-
-
Bradley, P.1
Malmstrom, L.2
Qian, B.3
Schonbrun, J.4
Chivian, D.5
Kim, D.E.6
Meiler, J.7
Misura, K.M.S.8
Baker, D.9
-
28
-
-
33645504195
-
Identification of correct regions in protein models using structural, alignment, and consensus information
-
doi:10.1110/ps.051799606
-
Wallner B, Elofsson A (2006) Identification of correct regions in protein models using structural, alignment, and consensus information. Protein Sci 15(4):900-913. doi:10.1110/ps.051799606
-
(2006)
Protein Sci
, vol.15
, Issue.4
, pp. 900-913
-
-
Wallner, B.1
Elofsson, A.2
-
29
-
-
0242299169
-
Automatic Consensus-Based Fold Recognition Using Pcons, ProQ, and Pmodeller
-
DOI 10.1002/prot.10536
-
Wallner B, Fang H, Elofsson A (2003) Automatic consensus-based fold recognition using Pcons, ProQ, and Pmodeller. Proteins 53(Suppl 6):534-541. doi:10.1002/prot.10536 (Pubitemid 37352213)
-
(2003)
Proteins: Structure, Function and Genetics
, vol.53
, Issue.SUPPL. 6
, pp. 534-541
-
-
Wallner, B.1
Fang, H.2
Elofsson, A.3
-
30
-
-
54949097750
-
Meta-MQAP: A meta-server for the quality assessment of protein models BMC
-
doi:10.1186/1471-2105-9-403
-
Pawlowski M, Gajda MJ, Matlak R, Bujnicki JM (2008) Meta-MQAP: a meta-server for the quality assessment of protein models BMC. Bioinformatics 9:403. doi:10.1186/1471-2105-9-403
-
(2008)
Bioinformatics
, vol.9
, pp. 403
-
-
Pawlowski, M.1
Gajda, M.J.2
Matlak, R.3
Bujnicki, J.M.4
-
31
-
-
0035896024
-
ConSurf: An algorithmic tool for the identification of functional regions in proteins by surface mapping of phylogenetic information
-
doi:10.1006/jmbi.2001.4474
-
Armon A, Graur D, Ben-Tal N (2001) ConSurf: an algorithmic tool for the identification of functional regions in proteins by surface mapping of phylogenetic information. J Mol Biol 307 (1):447-463. doi:10.1006/jmbi.2001.4474
-
(2001)
J Mol Biol
, vol.307
, Issue.1
, pp. 447-463
-
-
Armon, A.1
Graur, D.2
Ben-Tal, N.3
-
32
-
-
2542445427
-
ConSurf: Identification of functional regions in proteins by surface-mapping of phylogenetic information
-
DOI 10.1093/bioinformatics/19.1.163
-
Glaser F, Pupko T, Paz I, Bell RE, Bechor-Shental D, Martz E, Ben-Tal N (2003) ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information. Bioinformatics 19(1):163-164. doi:10.1093/bioinformatics/19.1.163 (Pubitemid 36150199)
-
(2003)
Bioinformatics
, vol.19
, Issue.1
, pp. 163-164
-
-
Glaser, F.1
Pupko, T.2
Paz, I.3
Bell, R.E.4
Bechor-Shental, D.5
Martz, E.6
Ben-Tal, N.7
-
33
-
-
0035964342
-
Electrostatics of nanosystems: Application to microtubules and the ribosome
-
DOI 10.1073/pnas.181342398
-
Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA (2001) Electrostatics of nanosystems: application to microtubules and the ribosome. Proc Natl Acad Sci USA 98(18):10037-10041. doi:10.1073/pnas.181342398 (Pubitemid 32802969)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.18
, pp. 10037-10041
-
-
Baker, N.A.1
Sept, D.2
Joseph, S.3
Holst, M.J.4
McCammon, J.A.5
-
34
-
-
77953542590
-
-
on World Wide Web DeLano Scientific, Palo Alto, CA, USA
-
DeLano WL (2002) The PyMol Molecular Graphics System. on World Wide Web http://www.pymol.org, DeLano Scientific, Palo Alto, CA, USA:1.
-
(2002)
, pp. 1
-
-
DeLano, W.L.1
-
35
-
-
0027335950
-
HyperChem: A software package for computational chemistry and molecular modeling
-
Froimowitz M (1993) HyperChem: a software package for computational chemistry and molecular modeling. Biotechniques 14(6):1010-1013
-
(1993)
Biotechniques
, vol.14
, Issue.6
, pp. 1010-1013
-
-
Froimowitz, M.1
-
36
-
-
4544273801
-
Substrate binding analysis of the 23S rRNA methyltransferase RrmJ
-
DOI 10.1128/JB.186.19.6634-6642.2004
-
Hager J, Staker BL, Jakob U (2004) Substrate binding analysis of the 23 S rRNA methyltransferase RrmJ. J Bacteriol 186:6634-6642. doi:10.1128/JB.186.19. 6634-6642.2004 (Pubitemid 39258146)
-
(2004)
Journal of Bacteriology
, vol.186
, Issue.19
, pp. 6634-6642
-
-
Hager, J.1
Staker, B.L.2
Jakob, U.3
-
37
-
-
0025942238
-
Identification of the catalytic nucleophile of tRNA (m5U54) methyltransferase
-
doi:10.1021/bi00104a022
-
Kealey JT, Santi DV (1991) Identification of the catalytic nucleophile of tRNA (m5U54)methyltransferase. Biochemistry 30:9724-9728. doi:10.1021/ bi00104a022
-
(1991)
Biochemistry
, vol.30
, pp. 9724-9728
-
-
Kealey, J.T.1
Santi, D.V.2
-
38
-
-
0023176797
-
Kinetic and catalytic mechanism of HhaI methyltransferase
-
Wu JC, Santi DV (1987) Kinetic and catalytic mechanism of HhaI methyltransferase. J Biol Chem 262(10):4778-4786
-
(1987)
J Biol Chem
, vol.262
, Issue.10
, pp. 4778-4786
-
-
Wu, J.C.1
Santi, D.V.2
-
39
-
-
0034682446
-
M5C RNA and m5C DNA methyl transferases use different cysteine residues as catalysts
-
Liu Y, Santi DV (2000) m5C RNA and m5C DNA methyl transferases use different cysteine residues as catalysts. PNAS 97 (15):8263-8265
-
(2000)
PNAS
, vol.97
, Issue.15
, pp. 8263-8265
-
-
Liu, Y.1
Santi, D.V.2
-
41
-
-
33845382645
-
Comparing the efficacy of morphologic and DNA-based taxonomy in the freshwater gastropod genus Radix (Basommatophora, Pulmonata)
-
DOI 10.1186/1471-2148-6-100
-
Tkaczuk KL, Obarska A, Bujnicki JM (2006) Molecular phylogenetics and comparative modeling of HEN1, a methyltransferase involved in plant microRNA biogenesis. BMC Evol Biol 6:6. doi:10.1186/1471-2148-6-100 (Pubitemid 44903741)
-
(2006)
BMC Evolutionary Biology
, vol.6
, pp. 100
-
-
Pfenninger, M.1
Cordellier, M.2
Streit, B.3
-
42
-
-
53749094950
-
A novel CHHC Zn-finger domain found in spliceosomal proteins and tRNA modifying enzymes
-
doi:10.1093/bioinformatics/btn431
-
Andreeva A, Tidow H (2008) A novel CHHC Zn-finger domain found in spliceosomal proteins and tRNA modifying enzymes. Bioinformatics 24(20):2277-2280. doi:10.1093/bioinformatics/btn431
-
(2008)
Bioinformatics
, vol.24
, Issue.20
, pp. 2277-2280
-
-
Andreeva, A.1
Tidow, H.2
-
43
-
-
2342650072
-
Crystal structure of KsgA, a universally conserved rRNA adenine dimethyltransferase in Escherichia coli
-
DOI 10.1016/j.jmb.2004.02.068, PII S0022283604002487
-
O'Farrell HC, Scarsdale JN, Rife JP (2004) Crystal structure of KsgA, a universally conserved rRNA adenine dimethyltransferase in Escherichia coli. J Mol Biol 339(2):337-353. doi:10.1016/j. jmb.2004.02.068 (Pubitemid 38596953)
-
(2004)
Journal of Molecular Biology
, vol.339
, Issue.2
, pp. 337-353
-
-
O'Farrell, H.C.1
Scarsdale, J.N.2
Rife, J.P.3
-
44
-
-
2542631929
-
Single-body residue-level knowledge-based energy score combined with sequence-profile and secondary structure information for fold recognition
-
DOI 10.1002/prot.20007
-
Zhou H, Zhou Y (2004) Single-body residue-level knowledge-based energy score combined with sequence-profile and secondary structure information for fold recognition. Proteins 55(4):1005-1013. doi:10.1002/prot.20007 (Pubitemid 38702957)
-
(2004)
Proteins: Structure, Function and Genetics
, vol.55
, Issue.4
, pp. 1005-1013
-
-
Zhou, H.1
Zhou, Y.2
-
45
-
-
0033997036
-
Comparison of sequence profiles. Strategies for structural predictions using sequence information
-
doi::10.1110/ps.9.2.232
-
Rychlewski L, Jaroszewski L, Li W, Godzik A (2000) Comparison of sequence profiles. Strategies for structural predictions using sequence information. Protein Sci 9(2):232-241. doi::10.1110/ps.9.2.232
-
(2000)
Protein Sci
, vol.9
, Issue.2
, pp. 232-241
-
-
Rychlewski, L.1
Jaroszewski, L.2
Li, W.3
Godzik, A.4
-
46
-
-
23144452044
-
The HHpred interactive server for protein homology detection and structure prediction
-
DOI 10.1093/nar/gki408
-
Soding J, Biegert A, Lupas AN (2005) The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Res 33(Web Server issue):W244-W248. doi:10.1093/nar/gki408 (Pubitemid 44529917)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.WEB. SERV. ISS.
-
-
Soding, J.1
Biegert, A.2
Lupas, A.N.3
-
47
-
-
0033522646
-
The 2.2 a structure of the rRNA methyltransferase ErmC' and its complexes with cofactor and cofactor analogs: Implications for the reaction mechanism
-
DOI 10.1006/jmbi.1999.2788
-
Schluckebier G, Zhong P, Stewart KD, Kavanaugh TJ, Abad-Zapatero C (1999) The 2.2 A structure of the rRNA methyl transferase ErmC′ and its complexes with cofactor and cofactor analogs: implications for the reaction mechanism. J Mol Biol 289 (2):277-291. doi:10.1006/jmbi.1999.2788 (Pubitemid 29278382)
-
(1999)
Journal of Molecular Biology
, vol.289
, Issue.2
, pp. 277-291
-
-
Schluckebier, G.1
Zhong, P.2
Stewart, K.D.3
Kavanaugh, T.J.4
Abad-Zapatero, C.5
-
48
-
-
0037624841
-
3D-SHOTGUN: A novel, cooperative, fold-recognition meta-predictor
-
DOI 10.1002/prot.10357
-
Fischer D (2003) 3D-SHOTGUN: a novel, cooperative, fold-recognition meta-predictor. Proteins 51(3):434-441. doi:10.1002/prot.10357 (Pubitemid 36528828)
-
(2003)
Proteins: Structure, Function and Genetics
, vol.51
, Issue.3
, pp. 434-441
-
-
Fischer, D.1
-
49
-
-
0034595501
-
Enhanced genome annotation using structural profiles in the program 3D-PSSM
-
doi:10.1006/jmbi.2000.3741
-
Kelley LA, MacCallum RM, Sternberg MJ (2000) Enhanced genome annotation using structural profiles in the program 3D-PSSM. J Mol Biol 299(2):499-520. doi:10.1006/jmbi.2000. 3741
-
(2000)
J Mol Biol
, vol.299
, Issue.2
, pp. 499-520
-
-
Kelley, L.A.1
MacCallum, R.M.2
Sternberg, M.J.3
-
50
-
-
0032546573
-
Crystal structure of ErmC', an rRNA methyltransferase which mediates antibiotic resistance in bacteria
-
DOI 10.1021/bi973113c
-
Bussiere DE, Muchmore SW, Dealwis CG, Schluckebier G, Nienaber VL, Edalji RP, Walter KA, Ladror US, Holzman TF, Abad-Zapatero C (1998) Crystal structure of ErmC′, an rRNA methyltransferase which mediates antibiotic resistance in bacteria. Biochemistry 37(20):7103-7112. doi:10.1021/bi973113c (Pubitemid 28235190)
-
(1998)
Biochemistry
, vol.37
, Issue.20
, pp. 7103-7112
-
-
Bussiere, D.E.1
Muchmore, S.W.2
Dealwis, C.G.3
Schluckebier, G.4
Nienaber, V.L.5
Edalji, R.P.6
Walter, K.A.7
Ladror, U.S.8
Holzman, T.F.9
Abad-Zapatero, C.10
-
51
-
-
0033537993
-
GenTHREADER: An efficient and reliable protein fold recognition method for genomic sequences
-
DOI 10.1006/jmbi.1999.2583
-
Jones DT (1999) GenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences. J Mol Biol 287(4):797-815. doi:10.1006/jmbi.1999.2583 (Pubitemid 29176514)
-
(1999)
Journal of Molecular Biology
, vol.287
, Issue.4
, pp. 797-815
-
-
Jones, D.T.1
-
52
-
-
0030902818
-
Solution structure of an rRNA methyltransferase (ErmAM) that confers macrolide-lincosamide-streptogramin antibiotic resistance
-
DOI 10.1038/nsb0697-483
-
Yu L, Petros AM, Schnuchel A, Zhong P, Severin JM, Walter K, Holzman TF, Fesik SW (1997) Solution structure of an rRNA methyltransferase (ErmAM) that confers macrolide-lincosamide-streptogramin antibiotic resistance. Nat Struct Biol 4(6):483-489. doi:10.1038/nsb0697-483 (Pubitemid 27263602)
-
(1997)
Nature Structural Biology
, vol.4
, Issue.6
, pp. 483-489
-
-
Yu, L.1
Petros, A.M.2
Schnuchel, A.3
Zhong, P.4
Severin, J.M.5
Walter, K.6
Holzman, T.F.7
Fesik, S.W.8
-
53
-
-
0035576364
-
Crystal structure of YecO from Haemophilus influenzae (HI0319) reveals a methyltransferase fold and a bound S-adenosylhomocysteine
-
DOI 10.1002/prot.10004
-
Lim K, Zhang H, Tempczyk A, Bonander N, Toedt J, Howard A, Eisenstein E, Herzberg O (2001) Crystal structure of YecO from Haemophilus influenzae (HI0319) reveals a methyltransferase fold and a bound S-adenosylhomocysteine. Proteins 45(4):397-407. doi:10.1002/prot.10004 (Pubitemid 33108074)
-
(2001)
Proteins: Structure, Function and Genetics
, vol.45
, Issue.4
, pp. 397-407
-
-
Lim, K.1
Zhang, H.2
Tempczyk, A.3
Bonander, N.4
Toedt, J.5
Howard, A.6
Eisenstein, E.7
Herzberg, O.8
-
54
-
-
0035967880
-
FUGUE: Sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties
-
DOI 10.1006/jmbi.2001.4762
-
Shi J, Blundell TL, Mizuguchi K (2001) FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties. J Mol Biol 310(1):243-257. doi:10.1006/jmbi.2001.4762 (Pubitemid 32619966)
-
(2001)
Journal of Molecular Biology
, vol.310
, Issue.1
, pp. 243-257
-
-
Shi, J.1
Blundell, T.L.2
Mizuguchi, K.3
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