-
1
-
-
0030812487
-
Homing endonucleases: Keeping the house in order
-
Belfort,M. and Roberts,R.J. (1997) Homing endonucleases: Keeping the house in order. Nucleic Acids Res., 25, 3379-3388.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3379-3388
-
-
Belfort, M.1
Roberts, R.J.2
-
2
-
-
0035883706
-
Homing endonucleases: Structural and functional insight into the catalysis of intron/intein mobility
-
Chevalier,B.S. and Stoddard,B.L. (2001) Homing endonucleases: Structural and functional insight into the catalysis of intron/intein mobility. Nucleic Acid Res., 29, 3757-3774.
-
(2001)
Nucleic Acid Res
, vol.29
, pp. 3757-3774
-
-
Chevalier, B.S.1
Stoddard, B.L.2
-
3
-
-
0012636820
-
Speculations on the early course of evolution
-
Darnell,J.E. and Doolittle,W.F. (1986) Speculations on the early course of evolution. Proc. Natl. Acad. Sci. USA, 83, 12 71-1275.
-
(1986)
Proc. Natl. Acad. Sci. USA
, vol.83
, Issue.12
, pp. 71-1275
-
-
Darnell, J.E.1
Doolittle, W.F.2
-
4
-
-
33645221999
-
The nature and dynamics of bacterial genomes
-
Ochman,H. and Davalos,L.M. (2006) The nature and dynamics of bacterial genomes. Science, 311, 1730-1733.
-
(2006)
Science
, vol.311
, pp. 1730-1733
-
-
Ochman, H.1
Davalos, L.M.2
-
5
-
-
0025688976
-
Phage T4 introns: Self-splicing and mobility
-
Belfort,M. (1990) Phage T4 introns: Self-splicing and mobility. Annu. Rev. Genet., 24, 363-385.
-
(1990)
Annu. Rev. Genet
, vol.24
, pp. 363-385
-
-
Belfort, M.1
-
6
-
-
0024965995
-
Intron mobility in the T-Even phages: High frequency inheritance of group I introns promoted by intron open reading frames
-
Quirk,S.M., Bell-Pedersen,D. and Belfort,M. (1989) Intron mobility in the T-Even phages: High frequency inheritance of group I introns promoted by intron open reading frames. Cell, 56, 455-465.
-
(1989)
Cell
, vol.56
, pp. 455-465
-
-
Quirk, S.M.1
Bell-Pedersen, D.2
Belfort, M.3
-
7
-
-
0025796852
-
The phage T4 nrdB intron: A deletion mutant of a version found in the wild
-
Eddy,S.R. and Gold,L. (1991) The phage T4 nrdB intron: A deletion mutant of a version found in the wild. Genes Dev., 5, 1032-1041.
-
(1991)
Genes Dev
, vol.5
, pp. 1032-1041
-
-
Eddy, S.R.1
Gold, L.2
-
8
-
-
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
-
9
-
-
0033006298
-
Structural and mechanistic basis of immunity toward endonuclease colicins
-
Kleanthous,C., Kuhlmann,U.C., Pommer,A.J., Ferguson,N., Radford,S.E., Moore,G.R., James,R. and Hemmings,A.M. (1999) Structural and mechanistic basis of immunity toward endonuclease colicins. Nature Struct. Biol. 6, 243-252.
-
(1999)
Nature Struct. Biol
, vol.6
, pp. 243-252
-
-
Kleanthous, C.1
Kuhlmann, U.C.2
Pommer, A.J.3
Ferguson, N.4
Radford, S.E.5
Moore, G.R.6
James, R.7
Hemmings, A.M.8
-
10
-
-
33751098280
-
-
Belfort,M, Derbyshire,V, Stoddard,B.L. and Wood,D.W, eds, Springer-Verlag, pp
-
Keeble,A.H., Mate,M.J. and Kleanthous,C. (2005). In: Belfort,M., Derbyshire,V., Stoddard,B.L. and Wood,D.W. (eds). Homing Endonucleases and Inteins. Springer-Verlag, pp. 49-65.
-
(2005)
Homing Endonucleases and Inteins
, pp. 49-65
-
-
Keeble, A.H.1
Mate, M.J.2
Kleanthous, C.3
-
11
-
-
31344461104
-
2+
-
2+. Protein Sci. 15, 269-280.
-
(2006)
Protein Sci
, vol.15
, pp. 269-280
-
-
Doudeva, L.G.1
Huang, H.2
Hsia, K.C.3
Shi, Z.4
Li, C.L.5
Shen, Y.6
Cheng, Y.S.7
Yuan, H.S.8
-
12
-
-
4143108003
-
DNA binding and cleavage by the HNH homing endonuclease I-HmuI
-
Shen,B.W., Landthaler,M., Shub,D.A. and Stoddard,B.L. (2004) DNA binding and cleavage by the HNH homing endonuclease I-HmuI. J. Mol. Biol., 342 43-56.
-
(2004)
J. Mol. Biol
, vol.342
, pp. 43-56
-
-
Shen, B.W.1
Landthaler, M.2
Shub, D.A.3
Stoddard, B.L.4
-
13
-
-
0037901842
-
The nicking homing endonuclease I-BasI is encoded by a group I intron in the DNA polymerase gene of the Bacillus thuringiensis phage Bastille
-
Landthaler,M. and Shub,D.A. (2003) The nicking homing endonuclease I-BasI is encoded by a group I intron in the DNA polymerase gene of the Bacillus thuringiensis phage Bastille. Nucleic Acids Res., 31, 3071-3077.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3071-3077
-
-
Landthaler, M.1
Shub, D.A.2
-
14
-
-
0031556945
-
Two-domain structure of the td intron-encoded endonuclease I-TevI correlates with the two-domain configuration of the homing site
-
Derbyshire,V., Kowalski,J.C., Dansereau,J.T., Hauer,C.R. and Belfort,M. (1997) Two-domain structure of the td intron-encoded endonuclease I-TevI correlates with the two-domain configuration of the homing site. J. Mol. Biol., 265, 494-506.
-
(1997)
J. Mol. Biol
, vol.265
, pp. 494-506
-
-
Derbyshire, V.1
Kowalski, J.C.2
Dansereau, J.T.3
Hauer, C.R.4
Belfort, M.5
-
15
-
-
33646191793
-
-
Belfort,M, Derbyshire,V, Stoddard,B.L. and Wood,D.W, eds, Springer-Verlag, pp
-
Van Roey,P. and Derbyshire,V. (2005). In: Belfort,M., Derbyshire,V., Stoddard,B.L. and Wood,D.W. (eds). Homing Endonucleases and Inteins Springer-Verlag, pp. 67-83.
-
(2005)
Homing Endonucleases and Inteins
, pp. 67-83
-
-
Van Roey, P.1
Derbyshire, V.2
-
16
-
-
3843131961
-
Structural mechanisms of DNA replication, repair, and recombination
-
Stauffer,M.E. and Chazin,W.J. (2004) Structural mechanisms of DNA replication, repair, and recombination. J. Biol. Chem., 279, 30915-30918.
-
(2004)
J. Biol. Chem
, vol.279
, pp. 30915-30918
-
-
Stauffer, M.E.1
Chazin, W.J.2
-
17
-
-
1642377615
-
Homology modeling and mutational analysis of Ho endonuclease of yeast
-
Bakhrat,A., Jurica,M.S., Stoddard,B.L. and Raveh,D. (2004) Homology modeling and mutational analysis of Ho endonuclease of yeast. Genetics, 166, 721-728.
-
(2004)
Genetics
, vol.166
, pp. 721-728
-
-
Bakhrat, A.1
Jurica, M.S.2
Stoddard, B.L.3
Raveh, D.4
-
18
-
-
0035898540
-
Intertwined structure of the DNA-binding domain of intron endonuclease I-TevI with its substrate
-
Van Roey,P., Waddling,C.A., Fox,K.M., Belfort,M. and Derbyshire,V. (2001) Intertwined structure of the DNA-binding domain of intron endonuclease I-TevI with its substrate. EMBO J., 20, 3631-3637.
-
(2001)
EMBO J
, vol.20
, pp. 3631-3637
-
-
Van Roey, P.1
Waddling, C.A.2
Fox, K.M.3
Belfort, M.4
Derbyshire, V.5
-
19
-
-
0032474760
-
DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI
-
Flick,K.E., Jurica,M.S., Monnat,R.J., Jr. and Stoddard,B.L. (1998) DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI. Nature, 394, 96-101.
-
(1998)
Nature
, vol.394
, pp. 96-101
-
-
Flick, K.E.1
Jurica, M.S.2
Monnat Jr., R.J.3
Stoddard, B.L.4
-
20
-
-
0035870760
-
Treble clef finger - a functionally diverse zinc-binding structural motif
-
Grishin,N.V. (2001) Treble clef finger - a functionally diverse zinc-binding structural motif. Nucleic Acids Res., 29, 1703-1714.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 1703-1714
-
-
Grishin, N.V.1
-
21
-
-
0037439997
-
Structural classification of zinc fingers: Survey and summary
-
Krishna,S.S., Majumdar,I. and Grishin,N.V. (2003) Structural classification of zinc fingers: Survey and summary. Nucleic Acids Res., 31, 532-550.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 532-550
-
-
Krishna, S.S.1
Majumdar, I.2
Grishin, N.V.3
-
22
-
-
0025283867
-
-
Goeddel,D.V, ed, Academic Press, New York
-
Studier,F.W., Rosenberg,A.H., Dunn,J.J. and Dubendorff,J.W. (1990). In: Goeddel,D.V. (ed). Methods in Enzymology. Academic Press, New York, Vol. 185, pp. 60-89.
-
(1990)
Methods in Enzymology
, vol.185
, pp. 60-89
-
-
Studier, F.W.1
Rosenberg, A.H.2
Dunn, J.J.3
Dubendorff, J.W.4
-
23
-
-
6244309278
-
Coincidence of cleavage sites of intron endonuclease I-TevI and critical sequences of the host thymidylate synthase gene
-
Edgell,D.R., Stanger,M.J. and Belfort,M. (2004) Coincidence of cleavage sites of intron endonuclease I-TevI and critical sequences of the host thymidylate synthase gene. J. Mol. Biol., 343, 1231-1241.
-
(2004)
J. Mol. Biol
, vol.343
, pp. 1231-1241
-
-
Edgell, D.R.1
Stanger, M.J.2
Belfort, M.3
-
24
-
-
0025883512
-
I-TevI, the endonuclease encoded by the mobile td intron, recognizes binding and cleavage domains on its DNA target
-
Bell-Pedersen,D., Quirk,S.M., Bryk,M. and Belfort,M. (1991) I-TevI, the endonuclease encoded by the mobile td intron, recognizes binding and cleavage domains on its DNA target. Proc. Natl. Acad. Sci. USA, 88, 7719-7723.
-
(1991)
Proc. Natl. Acad. Sci. USA
, vol.88
, pp. 7719-7723
-
-
Bell-Pedersen, D.1
Quirk, S.M.2
Bryk, M.3
Belfort, M.4
-
25
-
-
0028863007
-
Intronencoded endonuclease I-TevI binds as a monomer to effect sequential cleavage via conformational changes in the td homing site
-
Mueller,J.E., Smith,D., Bryk,M. and Belfort,M. (1995) Intronencoded endonuclease I-TevI binds as a monomer to effect sequential cleavage via conformational changes in the td homing site. EMBO J., 14 5724-5735.
-
(1995)
EMBO J
, vol.14
, pp. 5724-5735
-
-
Mueller, J.E.1
Smith, D.2
Bryk, M.3
Belfort, M.4
-
26
-
-
0037112699
-
Intein-mediated purification of cytotoxic endonuclease I-TevI by insertional inactivation and pH-controllable splicing
-
Wu,W., Wood,D.W., Belfort,G., Derbyshire,V. and Belfort,M. (2002) Intein-mediated purification of cytotoxic endonuclease I-TevI by insertional inactivation and pH-controllable splicing. Nucleic Acids Res., 30, 4864-4871.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 4864-4871
-
-
Wu, W.1
Wood, D.W.2
Belfort, G.3
Derbyshire, V.4
Belfort, M.5
-
27
-
-
0037172989
-
Zinc finger as distance determinant in the flexible linker of intron endonuclease I-TevI
-
Dean,A.B., Stanger,M.J., Dansereau,J.T., Van Roey,P., Derbyshire,V. and Belfort,M. (2002) Zinc finger as distance determinant in the flexible linker of intron endonuclease I-TevI. Proc. Natl. Acad. Sci. USA, 99, 8554-8561.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 8554-8561
-
-
Dean, A.B.1
Stanger, M.J.2
Dansereau, J.T.3
Van Roey, P.4
Derbyshire, V.5
Belfort, M.6
-
28
-
-
0025340541
-
Intron mobility in phage T4 is dependent upon a distinctive class of endonucleases and independent of DNA sequences encoding the intron core: Mechanistic and evolutionary implications
-
Bell-Pedersen,D., Quirk,S., Clyman,J. and Belfort,M. (1990) Intron mobility in phage T4 is dependent upon a distinctive class of endonucleases and independent of DNA sequences encoding the intron core: mechanistic and evolutionary implications. Nucleic Acids Res., 18, 3763-3770.
-
(1990)
Nucleic Acids Res
, vol.18
, pp. 3763-3770
-
-
Bell-Pedersen, D.1
Quirk, S.2
Clyman, J.3
Belfort, M.4
-
29
-
-
0027207339
-
The td intron endonuclease I-TevI makes extensive sequence-tolerant contacts across the minor groove of its DNA target
-
Bryk,M., Quirk,S.M., Mueller,J.E., Loizos,N., Lawrence,C. and Belfort,M. (1993) The td intron endonuclease I-TevI makes extensive sequence-tolerant contacts across the minor groove of its DNA target. EMBO J., 12, 2141-2149.
-
(1993)
EMBO J
, vol.12
, pp. 2141-2149
-
-
Bryk, M.1
Quirk, S.M.2
Mueller, J.E.3
Loizos, N.4
Lawrence, C.5
Belfort, M.6
-
30
-
-
0029962990
-
The intron-encoded endonuclease I-TevII binds across the minor groove and induces two distinct conformational changes in its DNA substrate
-
Loizos,N., Silva,G.H. and Belfort,M. (1996) The intron-encoded endonuclease I-TevII binds across the minor groove and induces two distinct conformational changes in its DNA substrate. J. Mol. Biol. 255, 412-424.
-
(1996)
J. Mol. Biol
, vol.255
, pp. 412-424
-
-
Loizos, N.1
Silva, G.H.2
Belfort, M.3
-
31
-
-
0025299910
-
Structural motif of the GCN4 DNA binding domain characterized by affinity cleaving
-
Oakley,M.G. and Dervan,P.B. (1990) Structural motif of the GCN4 DNA binding domain characterized by affinity cleaving. Science, 248 847-850.
-
(1990)
Science
, vol.248
, pp. 847-850
-
-
Oakley, M.G.1
Dervan, P.B.2
-
32
-
-
0034940222
-
Related homing endonucleases IBmoI and I-TevI use different strategies to cleave homologous recognition sites
-
Edgell,D.R. and Shub,D.A. (2001) Related homing endonucleases IBmoI and I-TevI use different strategies to cleave homologous recognition sites. Proc. Natl. Acad. Sci. USA, 98, 7898-7903.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 7898-7903
-
-
Edgell, D.R.1
Shub, D.A.2
-
33
-
-
0028151655
-
Amino acid sequence motif of group I intron endonucleases is conserved in open reading frames of group II introns
-
Shub,D.A., Goodrich-Blair,H. and Eddy,S.R. (1994) Amino acid sequence motif of group I intron endonucleases is conserved in open reading frames of group II introns. Trends Biochem. Sci., 19, 402-404.
-
(1994)
Trends Biochem. Sci
, vol.19
, pp. 402-404
-
-
Shub, D.A.1
Goodrich-Blair, H.2
Eddy, S.R.3
-
34
-
-
0028309650
-
Self-splicing group I and group II introns encode homologous (putative) DNA endonucleases of a new family
-
Gorbalenya,A.E. (1994) Self-splicing group I and group II introns encode homologous (putative) DNA endonucleases of a new family. Protein Sci., 3, 1117-1120.
-
(1994)
Protein Sci
, vol.3
, pp. 1117-1120
-
-
Gorbalenya, A.E.1
-
35
-
-
0001522673
-
Starch electrophoresis - application to the classification of pituitary proteins and polypeptides
-
Ferguson,K.A. (1964) Starch electrophoresis - application to the classification of pituitary proteins and polypeptides. Metabolism, 13, 985-1002.
-
(1964)
Metabolism
, vol.13
, pp. 985-1002
-
-
Ferguson, K.A.1
-
36
-
-
0023279358
-
Variable occurrences of the nrdB intron in T-even phages suggests intron mobility
-
Pedersen-Lane,J. and Belfort,M. (1987) Variable occurrences of the nrdB intron in T-even phages suggests intron mobility. Science, 237, 182-184.
-
(1987)
Science
, vol.237
, pp. 182-184
-
-
Pedersen-Lane, J.1
Belfort, M.2
-
37
-
-
0037850968
-
Importance of a single base pair for discrimination between intron-containing and intronless alleles by endonuclease I-BmoI
-
Edgell,D.R., Stanger,M.J. and Belfort,M. (2003) Importance of a single base pair for discrimination between intron-containing and intronless alleles by endonuclease I-BmoI. Curr. Biol., 13, 973-978.
-
(2003)
Curr. Biol
, vol.13
, pp. 973-978
-
-
Edgell, D.R.1
Stanger, M.J.2
Belfort, M.3
-
38
-
-
0034668391
-
Biochemical characterization of I-CmoeI reveals that this H-N-H homing endonuclease shares functional similarities with H-N-H colicins
-
Drouin,M., Lucas,P., Otis,C., Lemieux,C. and Turmel,M. (2000) Biochemical characterization of I-CmoeI reveals that this H-N-H homing endonuclease shares functional similarities with H-N-H colicins. Nucleic Acids Res., 28, 4566-4572.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 4566-4572
-
-
Drouin, M.1
Lucas, P.2
Otis, C.3
Lemieux, C.4
Turmel, M.5
-
39
-
-
0028467168
-
Crystal structure of PvuII endonuclease reveals extensive structural homologies to EcoRV: Partial folding and unfolding on DNA binding
-
Athanasiadis,A., Vlassi,M., Kotsifaki,D., Tucker,P.A., Wilson,K.S. and Kokkinidis,M. (1994) Crystal structure of PvuII endonuclease reveals extensive structural homologies to EcoRV: Partial folding and unfolding on DNA binding. Struct.Biol., 1, 469-475.
-
(1994)
Struct.Biol
, vol.1
, pp. 469-475
-
-
Athanasiadis, A.1
Vlassi, M.2
Kotsifaki, D.3
Tucker, P.A.4
Wilson, K.S.5
Kokkinidis, M.6
-
40
-
-
0028298842
-
Structure of restriction endonuclease BamHI and its relationship to EcoRI
-
Newman,M., Strzelecka,T., Dorner,L.F., Schildkraut,I. and Aggarwal,A.K. (1994) Structure of restriction endonuclease BamHI and its relationship to EcoRI. Nature, 368, 660-664.
-
(1994)
Nature
, vol.368
, pp. 660-664
-
-
Newman, M.1
Strzelecka, T.2
Dorner, L.F.3
Schildkraut, I.4
Aggarwal, A.K.5
-
41
-
-
0036529553
-
The zinc ion in the N-H-N motif of the endonuclease domain of colicin E7 is not required for DNA binding but is essential for DNA hydrolysis
-
Ku,W.-Y., Liu,Y.-W., Hsu,Y.-C., Liao,C.-C., Liang,P.-H., Yuan,H.S. and Chak,K.-F. (2002) The zinc ion in the N-H-N motif of the endonuclease domain of colicin E7 is not required for DNA binding but is essential for DNA hydrolysis. Nucleic Acids Res., 30, 1670-1678.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 1670-1678
-
-
Ku, W.-Y.1
Liu, Y.-W.2
Hsu, Y.-C.3
Liao, C.-C.4
Liang, P.-H.5
Yuan, H.S.6
Chak, K.-F.7
-
42
-
-
0039107950
-
Homing in on the role of transition metals in the HNH motif of colicin endonucleases
-
Pommer,A.J., Kuhlmann,U.C., Cooper,A., Hemmings,A.M., Moore,G.R., James,R. and Kleanthous,C. (1999) Homing in on the role of transition metals in the HNH motif of colicin endonucleases. J. Biol. Chem., 274, 27153-27160.
-
(1999)
J. Biol. Chem
, vol.274
, pp. 27153-27160
-
-
Pommer, A.J.1
Kuhlmann, U.C.2
Cooper, A.3
Hemmings, A.M.4
Moore, G.R.5
James, R.6
Kleanthous, C.7
-
43
-
-
0031938897
-
Modular organization of inteins and C-terminal autocatalytic domains
-
Pietrokovski,S. (1998) Modular organization of inteins and C-terminal autocatalytic domains. Protein Sci., 7, 64-71.
-
(1998)
Protein Sci
, vol.7
, pp. 64-71
-
-
Pietrokovski, S.1
-
44
-
-
9844256088
-
A bacterial group II intron encoding reverse transcriptase, maturase, and DNA endonuclease activities: Biochemical demonstration of maturase activity and insertion of new genetic information within the intron
-
Matsuura,M., Saldanha,R., Ma,H., Wank,H., Yang,J., Mohr,G., Cavanagh,S., Dunny,G.M., Belfort,M. et al. (1997) A bacterial group II intron encoding reverse transcriptase, maturase, and DNA endonuclease activities: Biochemical demonstration of maturase activity and insertion of new genetic information within the intron. Genes Dev., 11, 2910-2924.
-
(1997)
Genes Dev
, vol.11
, pp. 2910-2924
-
-
Matsuura, M.1
Saldanha, R.2
Ma, H.3
Wank, H.4
Yang, J.5
Mohr, G.6
Cavanagh, S.7
Dunny, G.M.8
Belfort, M.9
-
45
-
-
0030054233
-
Beyond homing: Competition between intron endonucleases confers a selective advantage on flanking genetic markers
-
Goodrich-Blair,H. and Shub,D.A. (1996) Beyond homing: Competition between intron endonucleases confers a selective advantage on flanking genetic markers. Cell, 84, 211-221.
-
(1996)
Cell
, vol.84
, pp. 211-221
-
-
Goodrich-Blair, H.1
Shub, D.A.2
-
46
-
-
0032426554
-
Recombination and recombination-dependent DNA replication in bacteriophage T4
-
Mosig,G. (1998) Recombination and recombination-dependent DNA replication in bacteriophage T4. Annu. Rev.Genet., 32, 379-413.
-
(1998)
Annu. Rev.Genet
, vol.32
, pp. 379-413
-
-
Mosig, G.1
-
47
-
-
3042646067
-
-
Calendar,R, ed, Plenum Press, New York and London
-
Stewart,C. (1988). In: Calendar,R. (ed). The Bacteriophages. Plenum Press, New York and London, Vol. 1, pp. 477-515.
-
(1988)
The Bacteriophages
, vol.1
, pp. 477-515
-
-
Stewart, C.1
|