-
1
-
-
0003803285
-
-
University Science Books, Sausalito, CA
-
Bloomfield,V.A., Crothers,D.M. and Tinomo,I.J. (2000) Nucleic Acids: Structures, Properties and Functions. University Science Books, Sausalito, CA.
-
(2000)
Nucleic Acids: Structures, Properties and Functions
-
-
Bloomfield, V.A.1
Crothers, D.M.2
Tinomo, I.J.3
-
2
-
-
0029145415
-
Hypermodified bases in DNA
-
Gommers-Ampt,J.H. and Borst,P. (1995) Hypermodified bases in DNA. FASEB J., 9, 1034-1042.
-
(1995)
FASEB J.
, vol.9
, pp. 1034-1042
-
-
Gommers-Ampt, J.H.1
Borst, P.2
-
3
-
-
79955072337
-
Natural history of eukaryotic DNA methylation systems
-
Iyer,L.M., Abhiman,S. and Aravind,L. (2011) Natural history of eukaryotic DNA methylation systems. Prog. Mol. Biol. Transl. Sci., 101, 25-104.
-
(2011)
Prog. Mol. Biol. Transl. Sci.
, vol.101
, pp. 25-104
-
-
Iyer, L.M.1
Abhiman, S.2
Aravind, L.3
-
4
-
-
0019248608
-
Modified bases in bacteriophage DNAs
-
Warren,R.A. (1980) Modified bases in bacteriophage DNAs. Annu. Rev. Microbiol., 34, 137-158.
-
(1980)
Annu. Rev. Microbiol.
, vol.34
, pp. 137-158
-
-
Warren, R.A.1
-
5
-
-
0000660061
-
-
In: Karam,J.D. (ed.) American Society of Microbiology, Washington, DC
-
Greenberg,G.R., He,P., Hilfinger,J. and Tseng,M.J. (1994) In: Karam,J.D. (ed.), Molecular Biology of Bacteriophage T4. American Society of Microbiology, Washington, DC, pp. 14-27.
-
(1994)
Molecular Biology of Bacteriophage T4
, pp. 14-27
-
-
Greenberg, G.R.1
He, P.2
Hilfinger, J.3
Tseng, M.J.4
-
6
-
-
0033105429
-
Crystal structure of deoxycytidylate hydroxymethylase from bacteriophage T4, a component of the deoxyribonucleoside triphosphate-synthesizing complex
-
Song,H.K., Sohn,S.H. and Suh,S.W. (1999) Crystal structure of deoxycytidylate hydroxymethylase from bacteriophage T4, a component of the deoxyribonucleoside triphosphate-synthesizing complex. EMBO J., 18, 1104-1113.
-
(1999)
EMBO J.
, vol.18
, pp. 1104-1113
-
-
Song, H.K.1
Sohn, S.H.2
Suh, S.W.3
-
7
-
-
0027965664
-
Crystal structure of the DNA modifying enzyme beta-glucosyltransferase in the presence and absence of the substrate uridine diphosphoglucose
-
Vrielink,A., Ruger,W., Driessen,H.P. and Freemont,P.S. (1994) Crystal structure of the DNA modifying enzyme beta-glucosyltransferase in the presence and absence of the substrate uridine diphosphoglucose. EMBO J., 13, 3413-3422.
-
(1994)
EMBO J.
, vol.13
, pp. 3413-3422
-
-
Vrielink, A.1
Ruger, W.2
Driessen, H.P.3
Freemont, P.S.4
-
8
-
-
0015724091
-
Studies on the biosynthesis of alpha-putrescinylthymine in bacteriophage phi W-14-infected Pseudomonas acidovorans
-
Kelln,R.A. and Warren,R.A. (1973) Studies on the biosynthesis of alpha-putrescinylthymine in bacteriophage phi W-14-infected Pseudomonas acidovorans. J. Virol., 12, 1427-1433.
-
(1973)
J. Virol.
, vol.12
, pp. 1427-1433
-
-
Kelln, R.A.1
Warren, R.A.2
-
9
-
-
0021960028
-
Polymer-level synthesis of oxopyrimidine deoxynucleotides by Bacillus subtilis phage SP10: Characterization of modification-defective mutants
-
Witmer,H. and Wiatr,C. (1985) Polymer-level synthesis of oxopyrimidine deoxynucleotides by Bacillus subtilis phage SP10: characterization of modification-defective mutants. J. Virol., 53, 522-527.
-
(1985)
J. Virol.
, vol.53
, pp. 522-527
-
-
Witmer, H.1
Wiatr, C.2
-
10
-
-
0021014030
-
Purification and characterization of the unusual deoxynucleoside, alpha-N-(9-beta-D-20- deoxyribofuranosylpurin-6-yl)glycinamide, specified by the phage Mu modification function
-
Swinton,D., Hattman,S., Crain,P.F., Cheng,C.S., Smith,D.L. and McCloskey,J.A. (1983) Purification and characterization of the unusual deoxynucleoside, alpha-N-(9-beta-D-20- deoxyribofuranosylpurin-6-yl)glycinamide, specified by the phage Mu modification function. Proc. Natl Acad. Sci. USA, 80, 7400-7404.
-
(1983)
Proc. Natl Acad. Sci. USA
, vol.80
, pp. 7400-7404
-
-
Swinton, D.1
Hattman, S.2
Crain, P.F.3
Cheng, C.S.4
Smith, D.L.5
McCloskey, J.A.6
-
11
-
-
38349118270
-
Bacteriophage Mu Mom protein responsible for DNA modification is a new member of the acyltransferase superfamily
-
Kaminska,K.H. and Bujnicki,J.M. (2008) Bacteriophage Mu Mom protein responsible for DNA modification is a new member of the acyltransferase superfamily. Cell Cycle, 7, 120-121.
-
(2008)
Cell Cycle
, vol.7
, pp. 120-121
-
-
Kaminska, K.H.1
Bujnicki, J.M.2
-
12
-
-
66749152204
-
Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids
-
Iyer,L.M., Tahiliani,M., Rao,A. and Aravind,L. (2009) Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids. Cell Cycle, 8, 1698-1710.
-
(2009)
Cell Cycle
, vol.8
, pp. 1698-1710
-
-
Iyer, L.M.1
Tahiliani, M.2
Rao, A.3
Aravind, L.4
-
13
-
-
6044247519
-
Genome of bacteriophage P1
-
Lobocka,M.B., Rose,D.J., Plunkett,G. 3rd, Rusin,M., Samojedny,A., Lehnherr,H., Yarmolinsky,M.B. and Blattner,F.R. (2004) Genome of bacteriophage P1. J. Bacteriol., 186, 7032-7068.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 7032-7068
-
-
Lobocka, M.B.1
Rose, D.J.2
Plunkett, G.3
Rusin, M.4
Samojedny, A.5
Lehnherr, H.6
Yarmolinsky, M.B.7
Blattner, F.R.8
-
15
-
-
79959426983
-
A novel immunity system for bacterial nucleic acid degrading toxins and its recruitment in various eukaryotic and DNA viral systems
-
Zhang,D., Iyer,L.M. and Aravind,L. (2011) A novel immunity system for bacterial nucleic acid degrading toxins and its recruitment in various eukaryotic and DNA viral systems. Nucleic Acids Res., 39, 4532-4552.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 4532-4552
-
-
Zhang, D.1
Iyer, L.M.2
Aravind, L.3
-
16
-
-
83755172749
-
Evolution of the deaminase fold and multiple origins of eukaryotic editing and mutagenic nucleic acid deaminases from bacterial toxin systems
-
Iyer,L.M., Zhang,D., Rogozin,I.B. and Aravind,L. (2011) Evolution of the deaminase fold and multiple origins of eukaryotic editing and mutagenic nucleic acid deaminases from bacterial toxin systems. Nucleic Acids Res., 39, 9473-9497.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 9473-9497
-
-
Iyer, L.M.1
Zhang, D.2
Rogozin, I.B.3
Aravind, L.4
-
17
-
-
84862602464
-
Polymorphic toxin systems: Comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics
-
Zhang,D., de Souza,R.F., Anantharaman,V., Iyer,L.M. and Aravind,L. (2012) Polymorphic toxin systems: comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics. Biol. Direct., 7, 18.
-
(2012)
Biol. Direct.
, vol.7
, pp. 18
-
-
Zhang, D.1
De Souza, R.F.2
Anantharaman, V.3
Iyer, L.M.4
Aravind, L.5
-
18
-
-
66149146320
-
Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1
-
Tahiliani,M., Koh,K.P., Shen,Y., Pastor,W.A., Bandukwala,H., Brudno,Y., Agarwal,S., Iyer,L.M., Liu,D.R., Aravind,L. et al. (2009) Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science, 324, 930-935.
-
(2009)
Science
, vol.324
, pp. 930-935
-
-
Tahiliani, M.1
Koh, K.P.2
Shen, Y.3
Pastor, W.A.4
Bandukwala, H.5
Brudno, Y.6
Agarwal, S.7
Iyer, L.M.8
Liu, D.R.9
Aravind, L.10
-
19
-
-
53849113697
-
Base J: Discovery, biosynthesis, and possible functions
-
Borst,P. and Sabatini,R. (2008) Base J: discovery, biosynthesis, and possible functions. Annu. Rev. Microbiol., 62, 235-251.
-
(2008)
Annu. Rev. Microbiol.
, vol.62
, pp. 235-251
-
-
Borst, P.1
Sabatini, R.2
-
20
-
-
84862001094
-
JBP1 and JBP2 proteins are Fe2+/2-oxoglutarate-dependent dioxygenases regulating hydroxylation of thymidine residues in trypanosome DNA
-
Cliffe,L.J., Hirsch,G., Wang,J., Ekanayake,D., Bullard,W., Hu,M., Wang,Y. and Sabatini,R. (2012) JBP1 and JBP2 proteins are Fe2+/2-oxoglutarate-dependent dioxygenases regulating hydroxylation of thymidine residues in trypanosome DNA. J. Biol. Chem., 287, 19886-19895.
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 19886-19895
-
-
Cliffe, L.J.1
Hirsch, G.2
Wang, J.3
Ekanayake, D.4
Bullard, W.5
Hu, M.6
Wang, Y.7
Sabatini, R.8
-
21
-
-
84865683794
-
Glucosylated hydroxymethyluracil, DNA base J, prevents transcriptional readthrough in Leishmania
-
van Luenen,H.G., Farris,C., Jan,S., Genest,P.A., Tripathi,P., Velds,A., Kerkhoven,R.M., Nieuwland,M., Haydock,A., Ramasamy,G. et al. (2012) Glucosylated hydroxymethyluracil, DNA base J, prevents transcriptional readthrough in Leishmania. Cell, 150, 909-921.
-
(2012)
Cell
, vol.150
, pp. 909-921
-
-
Van Luenen, H.G.1
Farris, C.2
Jan, S.3
Genest, P.A.4
Tripathi, P.5
Velds, A.6
Kerkhoven, R.M.7
Nieuwland, M.8
Haydock, A.9
Ramasamy, G.10
-
22
-
-
80055117761
-
Epigenetic regulation of polymerase II transcription initiation in Trypanosoma cruzi: Modulation of nucleosome abundance, histone modification, and polymerase occupancy by O-linked thymine DNA glucosylation
-
Ekanayake,D. and Sabatini,R. (2011) Epigenetic regulation of polymerase II transcription initiation in Trypanosoma cruzi: modulation of nucleosome abundance, histone modification, and polymerase occupancy by O-linked thymine DNA glucosylation. Eukaryot. Cell, 10, 1465-1472.
-
(2011)
Eukaryot. Cell
, vol.10
, pp. 1465-1472
-
-
Ekanayake, D.1
Sabatini, R.2
-
23
-
-
80052461558
-
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
-
Ito,S., Shen,L., Dai,Q., Wu,S.C., Collins,L.B., Swenberg,J.A., He,C. and Zhang,Y. (2011) Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science, 333, 1300-1303.
-
(2011)
Science
, vol.333
, pp. 1300-1303
-
-
Ito, S.1
Shen, L.2
Dai, Q.3
Wu, S.C.4
Collins, L.B.5
Swenberg, J.A.6
He, C.7
Zhang, Y.8
-
24
-
-
80052495940
-
Tet-mediated formation of 5- carboxylcytosine and its excision by TDG in mammalian DNA
-
He,Y.F., Li,B.Z., Li,Z., Liu,P., Wang,Y., Tang,Q., Ding,J., Jia,Y., Chen,Z., Li,L. et al. (2011) Tet-mediated formation of 5- carboxylcytosine and its excision by TDG in mammalian DNA. Science, 333, 1303-1307.
-
(2011)
Science
, vol.333
, pp. 1303-1307
-
-
He, Y.F.1
Li, B.Z.2
Li, Z.3
Liu, P.4
Wang, Y.5
Tang, Q.6
Ding, J.7
Jia, Y.8
Chen, Z.9
Li, L.10
-
25
-
-
84878260646
-
TETonic shift: Biological roles of TET proteins in DNA demethylation and transcription
-
Pastor,W.A., Aravind,L. and Rao,A. (2013) TETonic shift: Biological roles of TET proteins in DNA demethylation and transcription. Nat. Rev. Mol. Cell Biol., 14, 341-356.
-
(2013)
Nat. Rev. Mol. Cell Biol.
, vol.14
, pp. 341-356
-
-
Pastor, W.A.1
Aravind, L.2
Rao, A.3
-
26
-
-
82955207588
-
Mechanisms and functions of Tet protein-mediated 5-methylcytosine oxidation
-
Wu,H. and Zhang,Y. (2011) Mechanisms and functions of Tet protein-mediated 5-methylcytosine oxidation. Genes Dev., 25, 2436-2452.
-
(2011)
Genes Dev.
, vol.25
, pp. 2436-2452
-
-
Wu, H.1
Zhang, Y.2
-
27
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul,S.F., Madden,T.L., Schaffer,A.A., Zhang,J., Zhang,Z., Miller,W. and Lipman,D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, 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
-
28
-
-
77952988108
-
A new generation of homology search tools based on probabilistic inference
-
Eddy,S.R. (2009) A new generation of homology search tools based on probabilistic inference. Genome Inform., 23, 205-211.
-
(2009)
Genome Inform.
, vol.23
, pp. 205-211
-
-
Eddy, S.R.1
-
29
-
-
63349085641
-
Kalign2: High-performance multiple alignment of protein and nucleotide sequences allowing external features
-
Lassmann,T., Frings,O. and Sonnhammer,E.L. (2009) Kalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features. Nucleic Acids Res., 37, 858-865.
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 858-865
-
-
Lassmann, T.1
Frings, O.2
Sonnhammer, E.L.3
-
30
-
-
13244255415
-
MUSCLE: A multiple sequence alignment method with reduced time and space complexity
-
Edgar,R.C. (2004) MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics, 5, 113.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 113
-
-
Edgar, R.C.1
-
31
-
-
23144452044
-
The HHpred interactive server for protein homology detection and structure prediction
-
Soding,J., Biegert,A. and Lupas,A.N. (2005) The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Res., 33, W244-W248.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Soding, J.1
Biegert, A.2
Lupas, A.N.3
-
32
-
-
56649103902
-
Searching protein structure databases with DaliLite v.3
-
Holm,L., Kaariainen,S., Rosenstrom,P. and Schenkel,A. (2008) Searching protein structure databases with DaliLite v.3. Bioinformatics, 24, 2780-2781.
-
(2008)
Bioinformatics
, vol.24
, pp. 2780-2781
-
-
Holm, L.1
Kaariainen, S.2
Rosenstrom, P.3
Schenkel, A.4
-
33
-
-
48449106792
-
The Jpred 3 secondary structure prediction server
-
Cole,C., Barber,J.D. and Barton,G.J. (2008) The Jpred 3 secondary structure prediction server. Nucleic Acids Res., 36, W197-W201.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Cole, C.1
Barber, J.D.2
Barton, G.J.3
-
34
-
-
84858077472
-
The Pfam protein families database
-
Punta,M., Coggill,P.C., Eberhardt,R.Y., Mistry,J., Tate,J., Boursnell,C., Pang,N., Forslund,K., Ceric,G., Clements,J. et al. (2012) The Pfam protein families database. Nucleic Acids Res., 40, D290-D301.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Punta, M.1
Coggill, P.C.2
Eberhardt, R.Y.3
Mistry, J.4
Tate, J.5
Boursnell, C.6
Pang, N.7
Forslund, K.8
Ceric, G.9
Clements, J.10
-
35
-
-
77949718257
-
FastTree 2-approximately maximum-likelihood trees for large alignments
-
Price,M.N., Dehal,P.S. and Arkin,A.P. (2010) FastTree 2-approximately maximum-likelihood trees for large alignments. PLoS One, 5, e9490.
-
(2010)
PLoS One
, vol.5
-
-
Price, M.N.1
Dehal, P.S.2
Arkin, A.P.3
-
36
-
-
33645076499
-
Evolutionary genomics of nucleo-cytoplasmic large DNA viruses
-
Iyer,L.M., Balaji,S., Koonin,E.V. and Aravind,L. (2006) Evolutionary genomics of nucleo-cytoplasmic large DNA viruses. Virus Res., 117, 156-184.
-
(2006)
Virus Res.
, vol.117
, pp. 156-184
-
-
Iyer, L.M.1
Balaji, S.2
Koonin, E.V.3
Aravind, L.4
-
37
-
-
0034710899
-
A viral member of the ERV1/ALR protein family participates in a cytoplasmic pathway of disulfide bond formation
-
Senkevich,T.G., White,C.L., Koonin,E.V. and Moss,B. (2000) A viral member of the ERV1/ALR protein family participates in a cytoplasmic pathway of disulfide bond formation. Proc. Natl Acad. Sci. USA, 97, 12068-12073.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 12068-12073
-
-
Senkevich, T.G.1
White, C.L.2
Koonin, E.V.3
Moss, B.4
-
38
-
-
84855586679
-
Chloroviruses: Not your everyday plant virus
-
Van Etten,J.L. and Dunigan,D.D. (2012) Chloroviruses: not your everyday plant virus. Trends Plant Sci., 17, 1-8.
-
(2012)
Trends Plant Sci.
, vol.17
, pp. 1-8
-
-
Van Etten, J.L.1
Dunigan, D.D.2
-
39
-
-
77955983722
-
Origin and evolution of peptide-modifying dioxygenases and identification of the wybutosine hydroxylase/hydroperoxidase
-
Iyer,L.M., Abhiman,S., de Souza,R.F. and Aravind,L. (2010) Origin and evolution of peptide-modifying dioxygenases and identification of the wybutosine hydroxylase/hydroperoxidase. Nucleic Acids Res., 38, 5261-5279.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 5261-5279
-
-
Iyer, L.M.1
Abhiman, S.2
De Souza, R.F.3
Aravind, L.4
-
40
-
-
2942670387
-
Legionella drancourtii sp nov, a strictly intracellular amoebal pathogen
-
La Scola,B., Birtles,R.J., Greub,G., Harrison,T.J., Ratcliff,R.M. and Raoult,D. (2004) Legionella drancourtii sp. nov., a strictly intracellular amoebal pathogen. Int. J. Syst. Evol. Microbiol., 54, 699-703.
-
(2004)
Int. J. Syst. Evol. Microbiol.
, vol.54
, pp. 699-703
-
-
La Scola, B.1
Birtles, R.J.2
Greub, G.3
Harrison, T.J.4
Ratcliff, R.M.5
Raoult, D.6
-
41
-
-
79955057405
-
Natural history of the eukaryotic chromatin protein methylation system
-
Aravind,L., Abhiman,S. and Iyer,L.M. (2011) Natural history of the eukaryotic chromatin protein methylation system. Prog. Mol. Biol. Transl. Sci., 101, 105-176.
-
(2011)
Prog. Mol. Biol. Transl. Sci.
, vol.101
, pp. 105-176
-
-
Aravind, L.1
Abhiman, S.2
Iyer, L.M.3
-
42
-
-
0032169271
-
Conservation of gene order: A fingerprint of proteins that physically interact
-
Dandekar,T., Snel,B., Huynen,M. and Bork,P. (1998) Conservation of gene order: a fingerprint of proteins that physically interact. Trends Biochem. Sci., 23, 324-328.
-
(1998)
Trends Biochem. Sci.
, vol.23
, pp. 324-328
-
-
Dandekar, T.1
Snel, B.2
Huynen, M.3
Bork, P.4
-
43
-
-
0033055062
-
The use of gene clusters to infer functional coupling
-
Overbeek,R., Fonstein,M., D'Souza,M., Pusch,G.D. and Maltsev,N. (1999) The use of gene clusters to infer functional coupling. Proc. Natl Acad. Sci. USA, 96, 2896-2901.
-
(1999)
Proc. Natl Acad. Sci. USA
, vol.96
, pp. 2896-2901
-
-
Overbeek, R.1
Fonstein, M.2
D'souza, M.3
Pusch, G.D.4
Maltsev, N.5
-
44
-
-
49249084955
-
AglF, aglG and aglI, novel members of a gene island involved in the N-glycosylation of the Haloferax volcanii S-layer glycoprotein
-
Yurist-Doutsch,S., Abu-Qarn,M., Battaglia,F., Morris,H.R., Hitchen,P.G., Dell,A. and Eichler,J. (2008) AglF, aglG and aglI, novel members of a gene island involved in the N-glycosylation of the Haloferax volcanii S-layer glycoprotein. Mol. Microbiol., 69, 1234-1245.
-
(2008)
Mol. Microbiol.
, vol.69
, pp. 1234-1245
-
-
Yurist-Doutsch, S.1
Abu-Qarn, M.2
Battaglia, F.3
Morris, H.R.4
Hitchen, P.G.5
Dell, A.6
Eichler, J.7
-
45
-
-
0038309565
-
Three monophyletic superfamilies account for the majority of the known glycosyltransferases
-
Liu,J. and Mushegian,A. (2003) Three monophyletic superfamilies account for the majority of the known glycosyltransferases. Protein Sci., 12, 1418-1431.
-
(2003)
Protein Sci.
, vol.12
, pp. 1418-1431
-
-
Liu, J.1
Mushegian, A.2
-
46
-
-
49449087287
-
Glycosyltransferases: Structures, functions, and mechanisms
-
Lairson,L.L., Henrissat,B., Davies,G.J. and Withers,S.G. (2008) Glycosyltransferases: structures, functions, and mechanisms. Annu. Rev. Biochem., 77, 521-555.
-
(2008)
Annu. Rev. Biochem.
, vol.77
, pp. 521-555
-
-
Lairson, L.L.1
Henrissat, B.2
Davies, G.J.3
Withers, S.G.4
-
47
-
-
84874243484
-
Endogenous purification reveals GREB1 as a key estrogen receptor regulatory factor
-
Mohammed,H., D'Santos,C., Serandour,A.A., Ali,H.R., Brown,G.D., Atkins,A., Rueda,O.M., Holmes,K.A., Theodorou,V., Robinson,J.L. et al. (2013) Endogenous purification reveals GREB1 as a key estrogen receptor regulatory factor. Cell Rep., 3, 342-349.
-
(2013)
Cell Rep.
, vol.3
, pp. 342-349
-
-
Mohammed, H.1
D'santos, C.2
Serandour, A.A.3
Ali, H.R.4
Brown, G.D.5
Atkins, A.6
Rueda, O.M.7
Holmes, K.A.8
Theodorou, V.9
Robinson, J.L.10
-
48
-
-
0033677086
-
PDZK1 and GREB1 are estrogen-regulated genes expressed in hormone-responsive breast cancer
-
Ghosh,M.G., Thompson,D.A. and Weigel,R.J. (2000) PDZK1 and GREB1 are estrogen-regulated genes expressed in hormone-responsive breast cancer. Cancer Res., 60, 6367-6375.
-
(2000)
Cancer Res.
, vol.60
, pp. 6367-6375
-
-
Ghosh, M.G.1
Thompson, D.A.2
Weigel, R.J.3
-
49
-
-
84867039024
-
GREB1 functions as a growth promoter and is modulated by IL6/STAT3 in breast cancer
-
Liu,M., Wang,G., Gomez-Fernandez,C.R. and Guo,S. (2012) GREB1 functions as a growth promoter and is modulated by IL6/STAT3 in breast cancer. PLoS One, 7, e46410.
-
(2012)
PLoS One
, vol.7
-
-
Liu, M.1
Wang, G.2
Gomez-Fernandez, C.R.3
Guo, S.4
-
50
-
-
84870510604
-
Genome-wide association meta-analysis identifies new endometriosis risk loci
-
Nyholt,D.R., Low,S.K., Anderson,C.A., Painter,J.N., Uno,S., Morris,A.P., MacGregor,S., Gordon,S.D., Henders,A.K., Martin,N.G. et al. (2012) Genome-wide association meta-analysis identifies new endometriosis risk loci. Nat. Genet., 44, 1355-1359.
-
(2012)
Nat. Genet.
, vol.44
, pp. 1355-1359
-
-
Nyholt, D.R.1
Low, S.K.2
Anderson, C.A.3
Painter, J.N.4
Uno, S.5
Morris, A.P.6
Macgregor, S.7
Gordon, S.D.8
Henders, A.K.9
Martin, N.G.10
-
51
-
-
33646728919
-
GREB1 is a novel androgen-regulated gene required for prostate cancer growth
-
Rae,J.M., Johnson,M.D., Cordero,K.E., Scheys,J.O., Larios,J.M., Gottardis,M.M., Pienta,K.J. and Lippman,M.E. (2006) GREB1 is a novel androgen-regulated gene required for prostate cancer growth. Prostate, 66, 886-894.
-
(2006)
Prostate
, vol.66
, pp. 886-894
-
-
Rae, J.M.1
Johnson, M.D.2
Cordero, K.E.3
Scheys, J.O.4
Larios, J.M.5
Gottardis, M.M.6
Pienta, K.J.7
Lippman, M.E.8
-
52
-
-
84875218124
-
TET2 and TET3 regulate GlcNAcylation and H3K4 methylation through OGT and SET1/COMPASS
-
Deplus,R., Delatte,B., Schwinn,M.K., Defrance,M., Mendez,J., Murphy,N., Dawson,M.A., Volkmar,M., Putmans,P., Calonne,E. et al. (2013) TET2 and TET3 regulate GlcNAcylation and H3K4 methylation through OGT and SET1/COMPASS. EMBO J., 32, 645-655.
-
(2013)
EMBO J.
, vol.32
, pp. 645-655
-
-
Deplus, R.1
Delatte, B.2
Schwinn, M.K.3
Defrance, M.4
Mendez, J.5
Murphy, N.6
Dawson, M.A.7
Volkmar, M.8
Putmans, P.9
Calonne, E.10
-
53
-
-
84874266225
-
Tet proteins connect the O-Linked N-acetylglucosamine transferase ogt to chromatin in embryonic stem cells
-
Vella,P., Scelfo,A., Jammula,S., Chiacchiera,F., Williams,K., Cuomo,A., Roberto,A., Christensen,J., Bonaldi,T., Helin,K. et al. (2013) Tet proteins connect the O-Linked N-acetylglucosamine transferase ogt to chromatin in embryonic stem cells. Mol. Cell, 49, 645-656.
-
(2013)
Mol. Cell
, vol.49
, pp. 645-656
-
-
Vella, P.1
Scelfo, A.2
Jammula, S.3
Chiacchiera, F.4
Williams, K.5
Cuomo, A.6
Roberto, A.7
Christensen, J.8
Bonaldi, T.9
Helin, K.10
-
54
-
-
72949106699
-
Amidoligases with ATP-grasp, glutamine synthetase-like and acetyltransferase-like domains: Synthesis of novel metabolites and peptide modifications of proteins
-
Iyer,L.M., Abhiman,S., Maxwell Burroughs,A. and Aravind,L. (2009) Amidoligases with ATP-grasp, glutamine synthetase-like and acetyltransferase- like domains: synthesis of novel metabolites and peptide modifications of proteins. Mol. Biosyst., 5, 1636-1660.
-
(2009)
Mol. Biosyst.
, vol.5
, pp. 1636-1660
-
-
Iyer, L.M.1
Abhiman, S.2
Maxwell Burroughs, A.3
Aravind, L.4
-
55
-
-
0030954208
-
GCN5-related histone N-acetyltransferases belong to a diverse superfamily that includes the yeast SPT10 protein
-
Neuwald,A.F. and Landsman,D. (1997) GCN5-related histone N-acetyltransferases belong to a diverse superfamily that includes the yeast SPT10 protein. Trends Biochem. Sci., 22, 154-155.
-
(1997)
Trends Biochem. Sci.
, vol.22
, pp. 154-155
-
-
Neuwald, A.F.1
Landsman, D.2
-
56
-
-
84858273407
-
The secret lives of mycobacteriophages
-
Hatfull,G.F. (2012) The secret lives of mycobacteriophages. Adv. Virus Res., 82, 179-288.
-
(2012)
Adv. Virus Res.
, vol.82
, pp. 179-288
-
-
Hatfull, G.F.1
-
57
-
-
0032820027
-
Plasmid RK2 ParB protein: Purification and nuclease properties
-
Johnson,E.P., Mincer,T., Schwab,H., Burgin,A.B. and Helinski,D.R. (1999) Plasmid RK2 ParB protein: purification and nuclease properties. J. Bacteriol., 181, 6010-6018.
-
(1999)
J. Bacteriol.
, vol.181
, pp. 6010-6018
-
-
Johnson, E.P.1
Mincer, T.2
Schwab, H.3
Burgin, A.B.4
Helinski, D.R.5
-
58
-
-
48749086251
-
Comparative genomics and evolutionary trajectories of viral ATP dependent DNA-packaging systems
-
Burroughs,A.M., Iyer,L.M. and Aravind,L. (2007) Comparative genomics and evolutionary trajectories of viral ATP dependent DNA-packaging systems. Genome Dyn., 3, 48-65.
-
(2007)
Genome Dyn.
, vol.3
, pp. 48-65
-
-
Burroughs, A.M.1
Iyer, L.M.2
Aravind, L.3
-
59
-
-
0142011067
-
Evolution and classification of P-loop kinases and related proteins
-
Leipe,D.D., Koonin,E.V. and Aravind,L. (2003) Evolution and classification of P-loop kinases and related proteins. J. Mol. Biol., 333, 781-815.
-
(2003)
J. Mol. Biol.
, vol.333
, pp. 781-815
-
-
Leipe, D.D.1
Koonin, E.V.2
Aravind, L.3
-
60
-
-
84864396740
-
Biosynthesis of pyrrolopyrimidines
-
McCarty,R.M. and Bandarian,V. (2012) Biosynthesis of pyrrolopyrimidines. Bioorg. Chem., 43, 15-25.
-
(2012)
Bioorg. Chem.
, vol.43
, pp. 15-25
-
-
McCarty, R.M.1
Bandarian, V.2
-
61
-
-
78650915625
-
Genome annotation and intraviral interactome for the Streptococcus pneumoniae virulent phage Dp-1
-
Sabri,M., Hauser,R., Ouellette,M., Liu,J., Dehbi,M., Moeck,G., Garcia,E., Titz,B., Uetz,P. and Moineau,S. (2011) Genome annotation and intraviral interactome for the Streptococcus pneumoniae virulent phage Dp-1. J. Bacteriol., 193, 551-562.
-
(2011)
J. Bacteriol.
, vol.193
, pp. 551-562
-
-
Sabri, M.1
Hauser, R.2
Ouellette, M.3
Liu, J.4
Dehbi, M.5
Moeck, G.6
Garcia, E.7
Titz, B.8
Uetz, P.9
Moineau, S.10
-
62
-
-
0033046425
-
Novel predicted RNA-binding domains associated with the translation machinery
-
Aravind,L. and Koonin,E.V. (1999) Novel predicted RNA-binding domains associated with the translation machinery. J. Mol. Evol., 48, 291-302.
-
(1999)
J. Mol. Evol.
, vol.48
, pp. 291-302
-
-
Aravind, L.1
Koonin, E.V.2
-
63
-
-
79953128019
-
Twenty years hunting for sulfur in DNA
-
Chen,S., Wang,L. and Deng,Z. (2010) Twenty years hunting for sulfur in DNA. Protein Cell, 1, 14-21.
-
(2010)
Protein Cell
, vol.1
, pp. 14-21
-
-
Chen, S.1
Wang, L.2
Deng, Z.3
-
64
-
-
34249000758
-
DNA modification by sulfur: Analysis of the sequence recognition specificity surrounding the modification sites
-
Liang,J., Wang,Z., He,X., Li,J., Zhou,X. and Deng,Z. (2007) DNA modification by sulfur: analysis of the sequence recognition specificity surrounding the modification sites. Nucleic Acids Res., 35, 2944-2954.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 2944-2954
-
-
Liang, J.1
Wang, Z.2
He, X.3
Li, J.4
Zhou, X.5
Deng, Z.6
-
65
-
-
0036279618
-
Activation of prophage eib genes for immunoglobulin-binding proteins by genes from the IbrAB genetic island of Escherichia coli ECOR-9
-
Sandt,C.H., Hopper,J.E. and Hill,C.W. (2002) Activation of prophage eib genes for immunoglobulin-binding proteins by genes from the IbrAB genetic island of Escherichia coli ECOR-9. J. Bacteriol., 184, 3640-3648.
-
(2002)
J. Bacteriol.
, vol.184
, pp. 3640-3648
-
-
Sandt, C.H.1
Hopper, J.E.2
Hill, C.W.3
-
66
-
-
0028559230
-
A P-loop-like motif in a widespread ATP pyrophosphatase domain: Implications for the evolution of sequence motifs and enzyme activity
-
Bork,P. and Koonin,E.V. (1994) A P-loop-like motif in a widespread ATP pyrophosphatase domain: implications for the evolution of sequence motifs and enzyme activity. Proteins, 20, 347-355.
-
(1994)
Proteins
, vol.20
, pp. 347-355
-
-
Bork, P.1
Koonin, E.V.2
-
67
-
-
0036529621
-
Comparative genomics and evolution of proteins involved in RNA metabolism
-
Anantharaman,V., Koonin,E.V. and Aravind,L. (2002) Comparative genomics and evolution of proteins involved in RNA metabolism. Nucleic Acids Res., 30, 1427-1464.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 1427-1464
-
-
Anantharaman, V.1
Koonin, E.V.2
Aravind, L.3
-
68
-
-
0036643477
-
Monophyly of class i aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP-ATPase nucleotide-binding domains: Implications for protein evolution in the RNA
-
Aravind,L., Anantharaman,V. and Koonin,E.V. (2002) Monophyly of class I aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP-ATPase nucleotide-binding domains: implications for protein evolution in the RNA. Proteins, 48, 1-14.
-
(2002)
Proteins
, vol.48
, pp. 1-14
-
-
Aravind, L.1
Anantharaman, V.2
Koonin, E.V.3
-
69
-
-
71549173705
-
Discovery and characterization of tRNAIle lysidine synthetase (TilS)
-
Suzuki,T. and Miyauchi,K. (2010) Discovery and characterization of tRNAIle lysidine synthetase (TilS). FEBS Lett., 584, 272-277.
-
(2010)
FEBS Lett.
, vol.584
, pp. 272-277
-
-
Suzuki, T.1
Miyauchi, K.2
-
70
-
-
10744229752
-
An RNA-modifying enzyme that governs both the codon and amino acid specificities of isoleucine tRNA
-
Soma,A., Ikeuchi,Y., Kanemasa,S., Kobayashi,K., Ogasawara,N., Ote,T., Kato,J., Watanabe,K., Sekine,Y. and Suzuki,T. (2003) An RNA-modifying enzyme that governs both the codon and amino acid specificities of isoleucine tRNA. Mol. Cell, 12, 689-698.
-
(2003)
Mol. Cell
, vol.12
, pp. 689-698
-
-
Soma, A.1
Ikeuchi, Y.2
Kanemasa, S.3
Kobayashi, K.4
Ogasawara, N.5
Ote, T.6
Kato, J.7
Watanabe, K.8
Sekine, Y.9
Suzuki, T.10
-
71
-
-
0035823572
-
The role of the cysteine residues of ThiI in the generation of 4-thiouridine in tRNA
-
Mueller,E.G., Palenchar,P.M. and Buck,C.J. (2001) The role of the cysteine residues of ThiI in the generation of 4-thiouridine in tRNA. J. Biol. Chem., 276, 33588-33595.
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 33588-33595
-
-
Mueller, E.G.1
Palenchar, P.M.2
Buck, C.J.3
-
72
-
-
77949820848
-
Agmatine-conjugated cytidine in a tRNA anticodon is essential for AUA decoding in archaea
-
Ikeuchi,Y., Kimura,S., Numata,T., Nakamura,D., Yokogawa,T., Ogata,T., Wada,T. and Suzuki,T. (2010) Agmatine-conjugated cytidine in a tRNA anticodon is essential for AUA decoding in archaea. Nat. Chem. Biol., 6, 277-282.
-
(2010)
Nat. Chem. Biol.
, vol.6
, pp. 277-282
-
-
Ikeuchi, Y.1
Kimura, S.2
Numata, T.3
Nakamura, D.4
Yokogawa, T.5
Ogata, T.6
Wada, T.7
Suzuki, T.8
-
73
-
-
84861762301
-
Swi2/Snf2 remodelers: Hybrid views on hybrid molecular machines
-
Hopfner,K.P., Gerhold,C.B., Lakomek,K. and Wollmann,P. (2012) Swi2/Snf2 remodelers: hybrid views on hybrid molecular machines. Curr. Opin. Struct. Biol., 22, 225-233.
-
(2012)
Curr. Opin. Struct. Biol.
, vol.22
, pp. 225-233
-
-
Hopfner, K.P.1
Gerhold, C.B.2
Lakomek, K.3
Wollmann, P.4
-
74
-
-
84865080190
-
Complete genome sequences of two Persicivirga bacteriophages, P12024S and P12024L
-
Kang,I., Jang,H. and Cho,J.C. (2012) Complete genome sequences of two Persicivirga bacteriophages, P12024S and P12024L. J. Virol., 86, 8907-8908.
-
(2012)
J. Virol.
, vol.86
, pp. 8907-8908
-
-
Kang, I.1
Jang, H.2
Cho, J.C.3
-
75
-
-
0018842978
-
Specificity of the bacteriophage Mu mom+ -controlled DNA modification
-
Hattman,S. (1980) Specificity of the bacteriophage Mu mom+ -controlled DNA modification. J. Virol., 34, 277-279.
-
(1980)
J. Virol.
, vol.34
, pp. 277-279
-
-
Hattman, S.1
-
76
-
-
0021197378
-
Properties and specificity of methionyl-tRNAfMet formyltransferase from Escherichia coli
-
Blanquet,S., Dessen,P. and Kahn,D. (1984) Properties and specificity of methionyl-tRNAfMet formyltransferase from Escherichia coli. Methods Enzymol., 106, 141-152.
-
(1984)
Methods Enzymol.
, vol.106
, pp. 141-152
-
-
Blanquet, S.1
Dessen, P.2
Kahn, D.3
-
77
-
-
66149175454
-
Natural history of the E1-like superfamily: Implication for adenylation, sulfur transfer, and ubiquitin conjugation
-
Burroughs,A.M., Iyer,L.M. and Aravind,L. (2009) Natural history of the E1-like superfamily: implication for adenylation, sulfur transfer, and ubiquitin conjugation. Proteins, 75, 895-910.
-
(2009)
Proteins
, vol.75
, pp. 895-910
-
-
Burroughs, A.M.1
Iyer, L.M.2
Aravind, L.3
-
78
-
-
0022512704
-
Bacteriophage P1 cre gene and its regulatory region. Evidence for multiple promoters and for regulation by DNA methylation
-
Sternberg,N., Sauer,B., Hoess,R. and Abremski,K. (1986) Bacteriophage P1 cre gene and its regulatory region. Evidence for multiple promoters and for regulation by DNA methylation. J. Mol. Biol., 187, 197-212.
-
(1986)
J. Mol. Biol.
, vol.187
, pp. 197-212
-
-
Sternberg, N.1
Sauer, B.2
Hoess, R.3
Abremski, K.4
-
79
-
-
13344264573
-
The natural occurrence of ethionine in bactdria
-
Fisher,J.F. and Mallette,M.F. (1961) The natural occurrence of ethionine in bactdria. J. Gen. Physiol., 45, 1-13.
-
(1961)
J. Gen. Physiol.
, vol.45
, pp. 1-13
-
-
Fisher, J.F.1
Mallette, M.F.2
-
80
-
-
0019833864
-
Polyamine biosynthesis in Escherichia coli: Construction of polyamine-deficient mutants
-
Tabor,H. (1981) Polyamine biosynthesis in Escherichia coli: construction of polyamine-deficient mutants. Med. Biol., 59, 389-393.
-
(1981)
Med. Biol.
, vol.59
, pp. 389-393
-
-
Tabor, H.1
-
81
-
-
34247198471
-
Biosynthesis of butirosin: Transfer and deprotection of the unique amino acid side chain
-
Llewellyn,N.M., Li,Y. and Spencer,J.B. (2007) Biosynthesis of butirosin: transfer and deprotection of the unique amino acid side chain. Chem. Biol., 14, 379-386.
-
(2007)
Chem. Biol.
, vol.14
, pp. 379-386
-
-
Llewellyn, N.M.1
Li, Y.2
Spencer, J.B.3
-
82
-
-
70349453560
-
Structural basis of AdoMet-dependent aminocarboxypropyl transfer reaction catalyzed by tRNA-wybutosine synthesizing enzyme, TYW2
-
Umitsu,M., Nishimasu,H., Noma,A., Suzuki,T., Ishitani,R. and Nureki,O. (2009) Structural basis of AdoMet-dependent aminocarboxypropyl transfer reaction catalyzed by tRNA-wybutosine synthesizing enzyme, TYW2. Proc. Natl Acad. Sci. USA, 106, 15616-15621.
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 15616-15621
-
-
Umitsu, M.1
Nishimasu, H.2
Noma, A.3
Suzuki, T.4
Ishitani, R.5
Nureki, O.6
-
83
-
-
3042563761
-
Displacements of prohead protease genes in the late operons of double-stranded-DNA bacteriophages
-
Liu,J. and Mushegian,A. (2004) Displacements of prohead protease genes in the late operons of double-stranded-DNA bacteriophages. J. Bacteriol., 186, 4369-4375.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 4369-4375
-
-
Liu, J.1
Mushegian, A.2
-
84
-
-
0019507445
-
Synthesis of deoxythymidylate and the unusual deoxynucleotide in mature DNA of Bacillus subtilis bacteriophage SP10 occurs by postreplicational modification of 5-hydroxymethyldeoxyuridylate
-
Witmer,H. (1981) Synthesis of deoxythymidylate and the unusual deoxynucleotide in mature DNA of Bacillus subtilis bacteriophage SP10 occurs by postreplicational modification of 5-hydroxymethyldeoxyuridylate. J. Virol., 39, 536-547.
-
(1981)
J. Virol.
, vol.39
, pp. 536-547
-
-
Witmer, H.1
-
85
-
-
79957877061
-
The genome of Bacillus subtilis phage SP10: A comparative analysis with phage SPO1
-
Yee,L.M., Matsumoto,T., Yano,K., Matsuoka,S., Sadaie,Y., Yoshikawa,H. and Asai,K. (2011) The genome of Bacillus subtilis phage SP10: a comparative analysis with phage SPO1. Biosci. Biotechnol. Biochem., 75, 944-952.
-
(2011)
Biosci. Biotechnol. Biochem.
, vol.75
, pp. 944-952
-
-
Yee, L.M.1
Matsumoto, T.2
Yano, K.3
Matsuoka, S.4
Sadaie, Y.5
Yoshikawa, H.6
Asai, K.7
-
86
-
-
0019404112
-
5- [(Hydroxymethyl)-O-pyrophosphoryl]uracil, an intermediate in the biosynthesis of alpha-putrescinylthymine in deoxyribonucleic acid of bacteriophage phi W-14
-
Maltman,K.L., Neuhard,J. and Warren,R.A. (1981) 5- [(Hydroxymethyl)-O- pyrophosphoryl]uracil, an intermediate in the biosynthesis of alpha-putrescinylthymine in deoxyribonucleic acid of bacteriophage phi W-14. Biochemistry, 20, 3586-3591.
-
(1981)
Biochemistry
, vol.20
, pp. 3586-3591
-
-
Maltman, K.L.1
Neuhard, J.2
Warren, R.A.3
-
87
-
-
67650729745
-
The structural and biochemical foundations of thiamin biosynthesis
-
Jurgenson,C.T., Begley,T.P. and Ealick,S.E. (2009) The structural and biochemical foundations of thiamin biosynthesis. Annu. Rev. Biochem., 78, 569-603.
-
(2009)
Annu. Rev. Biochem.
, vol.78
, pp. 569-603
-
-
Jurgenson, C.T.1
Begley, T.P.2
Ealick, S.E.3
-
88
-
-
0034651873
-
DNA bending and a flip-out mechanism for base excision by the helix-hairpinhelix DNA glycosylase, Escherichia coli AlkA
-
Hollis,T., Ichikawa,Y. and Ellenberger,T. (2000) DNA bending and a flip-out mechanism for base excision by the helix-hairpinhelix DNA glycosylase, Escherichia coli AlkA. EMBO J., 19, 758-766.
-
(2000)
EMBO J.
, vol.19
, pp. 758-766
-
-
Hollis, T.1
Ichikawa, Y.2
Ellenberger, T.3
-
89
-
-
15444372597
-
Genomic analysis of bacteriophage PhiJL001: Insights into its interaction with a sponge-associated alpha-proteobacterium
-
Lohr,J.E., Chen,F. and Hill,R.T. (2005) Genomic analysis of bacteriophage PhiJL001: insights into its interaction with a sponge-associated alpha-proteobacterium. Appl. Environ. Microbiol., 71, 1598-1609.
-
(2005)
Appl. Environ. Microbiol.
, vol.71
, pp. 1598-1609
-
-
Lohr, J.E.1
Chen, F.2
Hill, R.T.3
-
90
-
-
0037025191
-
An alternative flavin-dependent mechanism for thymidylate synthesis
-
Myllykallio,H., Lipowski,G., Leduc,D., Filee,J., Forterre,P. and Liebl,U. (2002) An alternative flavin-dependent mechanism for thymidylate synthesis. Science, 297, 105-107.
-
(2002)
Science
, vol.297
, pp. 105-107
-
-
Myllykallio, H.1
Lipowski, G.2
Leduc, D.3
Filee, J.4
Forterre, P.5
Liebl, U.6
-
91
-
-
84866048106
-
Mechanistic studies of the radical SAM enzyme spore photoproduct lyase (SPL)
-
Li,L. (2012) Mechanistic studies of the radical SAM enzyme spore photoproduct lyase (SPL). Biochim. Biophys. Acta., 1824, 1264-1277.
-
(2012)
Biochim. Biophys. Acta.
, vol.1824
, pp. 1264-1277
-
-
Li, L.1
-
92
-
-
0027297771
-
Aminotransferases: Demonstration of homology and division into evolutionary subgroups
-
Mehta,P.K., Hale,T.I. and Christen,P. (1993) Aminotransferases: demonstration of homology and division into evolutionary subgroups. Eur. J. Biochem., 214, 549-561.
-
(1993)
Eur. J. Biochem.
, vol.214
, pp. 549-561
-
-
Mehta, P.K.1
Hale, T.I.2
Christen, P.3
-
93
-
-
0037485102
-
Thermotoga maritima MazG protein has both nucleoside triphosphate pyrophosphohydrolase and pyrophosphatase activities
-
Zhang,J., Zhang,Y. and Inouye,M. (2003) Thermotoga maritima MazG protein has both nucleoside triphosphate pyrophosphohydrolase and pyrophosphatase activities. J. Biol. Chem., 278, 21408-21414.
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 21408-21414
-
-
Zhang, J.1
Zhang, Y.2
Inouye, M.3
-
94
-
-
0034576553
-
The alpha/beta fold uracil DNA glycosylases: A common origin with diverse fates
-
RESEARCH0007
-
Aravind,L. and Koonin,E.V. (2000) The alpha/beta fold uracil DNA glycosylases: a common origin with diverse fates. Genome Biol., 1, RESEARCH0007.
-
(2000)
Genome Biol.
, vol.1
-
-
Aravind, L.1
Koonin, E.V.2
-
95
-
-
42349109747
-
MutL homologs in restriction-modification systems and the origin of eukaryotic MORC ATPases
-
Iyer,L.M., Abhiman,S. and Aravind,L. (2008) MutL homologs in restriction-modification systems and the origin of eukaryotic MORC ATPases. Biol. Direct., 3, 8.
-
(2008)
Biol. Direct.
, vol.3
, pp. 8
-
-
Iyer, L.M.1
Abhiman, S.2
Aravind, L.3
-
96
-
-
49249106618
-
The mildiomycin biosynthesis: Initial steps for sequential generation of 5-hydroxymethylcytidine 50-monophosphate and 5-hydroxymethylcytosine in Streptoverticillium rimofaciens ZJU5119
-
Li,L., Xu,Z., Xu,X., Wu,J., Zhang,Y., He,X., Zabriskie,T.M. and Deng,Z. (2008) The mildiomycin biosynthesis: initial steps for sequential generation of 5-hydroxymethylcytidine 50-monophosphate and 5-hydroxymethylcytosine in Streptoverticillium rimofaciens ZJU5119. Chembiochem, 9, 1286-1294.
-
(2008)
Chembiochem
, vol.9
, pp. 1286-1294
-
-
Li, L.1
Xu, Z.2
Xu, X.3
Wu, J.4
Zhang, Y.5
He, X.6
Zabriskie, T.M.7
Deng, Z.8
-
97
-
-
66149121080
-
Structural genomics reveals EVE as a new ASCH/PUA-related domain
-
Bertonati,C., Punta,M., Fischer,M., Yachdav,G., Forouhar,F., Zhou,W., Kuzin,A.P., Seetharaman,J., Abashidze,M., Ramelot,T.A. et al. (2009) Structural genomics reveals EVE as a new ASCH/PUA-related domain. Proteins, 75, 760-773.
-
(2009)
Proteins
, vol.75
, pp. 760-773
-
-
Bertonati, C.1
Punta, M.2
Fischer, M.3
Yachdav, G.4
Forouhar, F.5
Zhou, W.6
Kuzin, A.P.7
Seetharaman, J.8
Abashidze, M.9
Ramelot, T.A.10
-
98
-
-
32144431574
-
The ASCH superfamily: Novel domains with a fold related to the PUA domain and a potential role in RNA metabolism
-
Iyer,L.M., Burroughs,A.M. and Aravind,L. (2006) The ASCH superfamily: novel domains with a fold related to the PUA domain and a potential role in RNA metabolism. Bioinformatics, 22, 257-263.
-
(2006)
Bioinformatics
, vol.22
, pp. 257-263
-
-
Iyer, L.M.1
Burroughs, A.M.2
Aravind, L.3
-
99
-
-
53649089723
-
The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix
-
Hashimoto,H., Horton,J.R., Zhang,X., Bostick,M., Jacobsen,S.E. and Cheng,X. (2008) The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix. Nature, 455, 826-829.
-
(2008)
Nature
, vol.455
, pp. 826-829
-
-
Hashimoto, H.1
Horton, J.R.2
Zhang, X.3
Bostick, M.4
Jacobsen, S.E.5
Cheng, X.6
-
100
-
-
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. (2003) Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme. Cell, 113, 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
-
101
-
-
67650340746
-
Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA
-
Liang,B., Zhou,J., Kahen,E., Terns,R.M., Terns,M.P. and Li,H. (2009) Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA. Nat. Struct. Mol. Biol., 16, 740-746.
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 740-746
-
-
Liang, B.1
Zhou, J.2
Kahen, E.3
Terns, R.M.4
Terns, M.P.5
Li, H.6
-
102
-
-
84874771985
-
Dynamic readers for 5-(hydroxy) methylcytosine and its oxidized derivatives
-
Spruijt,C.G., Gnerlich,F., Smits,A.H., Pfaffeneder,T., Jansen,P.W., Bauer,C., Munzel,M., Wagner,M., Muller,M., Khan,F. et al. (2013) Dynamic readers for 5-(hydroxy) methylcytosine and its oxidized derivatives. Cell, 152, 1146-1159.
-
(2013)
Cell
, vol.152
, pp. 1146-1159
-
-
Spruijt, C.G.1
Gnerlich, F.2
Smits, A.H.3
Pfaffeneder, T.4
Jansen, P.W.5
Bauer, C.6
Munzel, M.7
Wagner, M.8
Muller, M.9
Khan, F.10
-
104
-
-
84868092588
-
Ter-dependent stress response systems: Novel pathways related to metal sensing, production of a nucleoside-like metabolite, and DNA-processing
-
Anantharaman,V., Iyer,L.M. and Aravind,L. (2012) Ter-dependent stress response systems: novel pathways related to metal sensing, production of a nucleoside-like metabolite, and DNA-processing. Mol. Biosyst., 8, 3142-3165.
-
(2012)
Mol. Biosyst.
, vol.8
, pp. 3142-3165
-
-
Anantharaman, V.1
Iyer, L.M.2
Aravind, L.3
-
105
-
-
0037161262
-
The GTP-dependent restriction enzyme McrBC from Escherichia coli forms high-molecular mass complexes with DNA and produces a cleavage pattern with a characteristic 10-base pair repeat
-
Pieper,U., Groll,D.H., Wunsch,S., Gast,F.U., Speck,C., Mucke,N. and Pingoud,A. (2002) The GTP-dependent restriction enzyme McrBC from Escherichia coli forms high-molecular mass complexes with DNA and produces a cleavage pattern with a characteristic 10-base pair repeat. Biochemistry, 41, 5245-5254.
-
(2002)
Biochemistry
, vol.41
, pp. 5245-5254
-
-
Pieper, U.1
Groll, D.H.2
Wunsch, S.3
Gast, F.U.4
Speck, C.5
Mucke, N.6
Pingoud, A.7
-
106
-
-
0033105094
-
Conserved domains in DNA repair proteins and evolution of repair systems
-
Aravind,L., Walker,D.R. and Koonin,E.V. (1999) Conserved domains in DNA repair proteins and evolution of repair systems. Nucleic Acids Res., 27, 1223-1242.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 1223-1242
-
-
Aravind, L.1
Walker, D.R.2
Koonin, E.V.3
-
107
-
-
33644756595
-
Homing endonuclease structure and function
-
Stoddard,B.L. (2005) Homing endonuclease structure and function. Q. Rev. Biophys., 38, 49-95.
-
(2005)
Q. Rev. Biophys.
, vol.38
, pp. 49-95
-
-
Stoddard, B.L.1
-
108
-
-
79953708539
-
A novel mechanism of programmed cell death in bacteria by toxin-antitoxin systems corrupts peptidoglycan synthesis
-
Mutschler,H., Gebhardt,M., Shoeman,R.L. and Meinhart,A. (2011) A novel mechanism of programmed cell death in bacteria by toxin-antitoxin systems corrupts peptidoglycan synthesis. PLoS Biol., 9, e1001033.
-
(2011)
PLoS Biol.
, vol.9
-
-
Mutschler, H.1
Gebhardt, M.2
Shoeman, R.L.3
Meinhart, A.4
-
109
-
-
84868685897
-
Live virus-free or die: Coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes
-
Makarova,K.S., Anantharaman,V., Aravind,L. and Koonin,E.V. (2012) Live virus-free or die: coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes. Biol. Direct., 7, 40.
-
(2012)
Biol. Direct.
, vol.7
, pp. 40
-
-
Makarova, K.S.1
Anantharaman, V.2
Aravind, L.3
Koonin, E.V.4
-
110
-
-
33646739111
-
The NYN domains: Novel predicted RNAses with a PIN domain-like fold
-
Anantharaman,V. and Aravind,L. (2006) The NYN domains: novel predicted RNAses with a PIN domain-like fold. RNA Biol., 3, 18-27.
-
(2006)
RNA Biol.
, vol.3
, pp. 18-27
-
-
Anantharaman, V.1
Aravind, L.2
-
111
-
-
84867304546
-
Gene flow and biological conflict systems in the origin and evolution of eukaryotes
-
Aravind,L., Anantharaman,V., Zhang,D., de Souza,R.F. and Iyer,L.M. (2012) Gene flow and biological conflict systems in the origin and evolution of eukaryotes. Front. Cell Infect. Microbiol., 2, 89.
-
(2012)
Front. Cell Infect. Microbiol.
, vol.2
, pp. 89
-
-
Aravind, L.1
Anantharaman, V.2
Zhang, D.3
De Souza, R.F.4
Iyer, L.M.5
-
112
-
-
0033753779
-
The DNA methyltransferases of mammals
-
Bestor,T.H. (2000) The DNA methyltransferases of mammals. Hum. Mol. Genet., 9, 2395-2402.
-
(2000)
Hum. Mol. Genet.
, vol.9
, pp. 2395-2402
-
-
Bestor, T.H.1
-
114
-
-
0025789755
-
Bacteriophage-mediated generalized transduction in Escherichia coli and Salmonella typhimurium
-
Sternberg,N.L. and Maurer,R. (1991) Bacteriophage-mediated generalized transduction in Escherichia coli and Salmonella typhimurium. Methods Enzymol., 204, 18-43.
-
(1991)
Methods Enzymol.
, vol.204
, pp. 18-43
-
-
Sternberg, N.L.1
Maurer, R.2
-
115
-
-
0027131801
-
Evidence of two levels of control of P1 oriR and host oriC replication origins by DNA adenine methylation
-
Abeles,A., Brendler,T. and Austin,S. (1993) Evidence of two levels of control of P1 oriR and host oriC replication origins by DNA adenine methylation. J. Bacteriol., 175, 7801-7807.
-
(1993)
J. Bacteriol.
, vol.175
, pp. 7801-7807
-
-
Abeles, A.1
Brendler, T.2
Austin, S.3
-
116
-
-
0023428980
-
P1 plasmid replication requires methylated DNA
-
Abeles,A.L. and Austin,S.J. (1987) P1 plasmid replication requires methylated DNA. EMBO J., 6, 3185-3189.
-
(1987)
EMBO J.
, vol.6
, pp. 3185-3189
-
-
Abeles, A.L.1
Austin, S.J.2
-
117
-
-
33645711927
-
The HIRAN domain and recruitment of chromatin remodeling and repair activities to damaged DNA
-
Iyer,L.M., Babu,M.M. and Aravind,L. (2006) The HIRAN domain and recruitment of chromatin remodeling and repair activities to damaged DNA. Cell Cycle, 5, 775-782.
-
(2006)
Cell Cycle
, vol.5
, pp. 775-782
-
-
Iyer, L.M.1
Babu, M.M.2
Aravind, L.3
-
118
-
-
84855695098
-
The HARE-HTH and associated domains: Novel modules in the coordination of epigenetic DNA and protein modifications
-
Aravind,L. and Iyer,L.M. (2012) The HARE-HTH and associated domains: novel modules in the coordination of epigenetic DNA and protein modifications. Cell Cycle, 11, 119-131.
-
(2012)
Cell Cycle
, vol.11
, pp. 119-131
-
-
Aravind, L.1
Iyer, L.M.2
|