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For: Sapranauskas R, Sasnauskas G, Lagunavicius A, Vilkaitis G, Lubys A, Siksnys V. Novel subtype of type IIs restriction enzymes. BfiI endonuclease exhibits similarities to the EDTA-resistant nuclease Nuc of Salmonella typhimurium. J Biol Chem 2000;275:30878-85. [PMID: 10880511 DOI: 10.1074/jbc.m003350200] [Citation(s) in RCA: 83] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
Number Cited by Other Article(s)
1
Santoshi M, Engleng B, Eligar SM, Ratnakar IS, Nagamalleshwari E, Nagaraja V. Identification and characterization of a new HNH restriction endonuclease with unusual properties. Appl Microbiol Biotechnol 2023;107:6263-6275. [PMID: 37626186 DOI: 10.1007/s00253-023-12717-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2023] [Revised: 07/20/2023] [Accepted: 07/28/2023] [Indexed: 08/27/2023]
2
Ivanovaitė ŠRN, Paksaitė J, Kopu Stas A, Karzaitė G, Rutkauskas D, Silanskas A, Sasnauskas G, Zaremba M, Jones SK, Tutkus M. smFRET Detection of Cis and Trans DNA Interactions by the BfiI Restriction Endonuclease. J Phys Chem B 2023. [PMID: 37452775 PMCID: PMC10388346 DOI: 10.1021/acs.jpcb.3c03269] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
3
Fokina AS, Karyagina AS, Rusinov IS, Moshensky DM, Spirin SA, Alexeevski AV. Evolution of Restriction–Modification Systems Consisting of One Restriction Endonuclease and Two DNA Methyltransferases. BIOCHEMISTRY (MOSCOW) 2023;88:253-261. [PMID: 37072330 DOI: 10.1134/s0006297923020086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/12/2023]
4
Ibryashkina EM, Solonin AS, Zakharova MV. Protein NCRII-18: the role of gene fusion in the molecular evolution of restriction endonucleases. FEBS Lett 2017;591:1702-1711. [DOI: 10.1002/1873-3468.12669] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2016] [Revised: 04/27/2017] [Accepted: 05/01/2017] [Indexed: 11/06/2022]
5
Dizman YA, Muratoglu H, Sandalli C, Nalcacioglu R, Demirbag Z. Chilo iridescent virus (CIV) ORF 012L encodes a protein with both exonuclease and endonuclease functions. Arch Virol 2016;161:3029-37. [PMID: 27496102 DOI: 10.1007/s00705-016-3007-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2016] [Accepted: 08/01/2016] [Indexed: 10/21/2022]
6
Zaremba M, Siksnys V. An Engineered SS Bridge Blocks the Conformational Change Required for the Nuclease Activity of BfiI. Biochemistry 2015;54:5340-7. [PMID: 26261897 DOI: 10.1021/acs.biochem.5b00437] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
7
Fukuyo M, Nakano T, Zhang Y, Furuta Y, Ishikawa K, Watanabe-Matsui M, Yano H, Hamakawa T, Ide H, Kobayashi I. Restriction-modification system with methyl-inhibited base excision and abasic-site cleavage activities. Nucleic Acids Res 2015;43:2841-52. [PMID: 25697504 PMCID: PMC4357717 DOI: 10.1093/nar/gkv116] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]  Open
8
Zaremba M, Toliusis P, Grigaitis R, Manakova E, Silanskas A, Tamulaitiene G, Szczelkun MD, Siksnys V. DNA cleavage by CgII and NgoAVII requires interaction between N- and R-proteins and extensive nucleotide hydrolysis. Nucleic Acids Res 2014;42:13887-96. [PMID: 25429977 PMCID: PMC4267653 DOI: 10.1093/nar/gku1236] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2014] [Revised: 10/31/2014] [Accepted: 11/10/2014] [Indexed: 01/07/2023]  Open
9
Comeaux EQ, van Waardenburg RCAM. Tyrosyl-DNA phosphodiesterase I resolves both naturally and chemically induced DNA adducts and its potential as a therapeutic target. Drug Metab Rev 2014;46:494-507. [PMID: 25327705 DOI: 10.3109/03602532.2014.971957] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
10
Pingoud A, Wilson GG, Wende W. Type II restriction endonucleases--a historical perspective and more. Nucleic Acids Res 2014;42:7489-527. [PMID: 24878924 PMCID: PMC4081073 DOI: 10.1093/nar/gku447] [Citation(s) in RCA: 175] [Impact Index Per Article: 15.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2014] [Revised: 05/02/2014] [Accepted: 05/07/2014] [Indexed: 12/17/2022]  Open
11
Elimination of inter-domain interactions increases the cleavage fidelity of the restriction endonuclease DraIII. Protein Cell 2014;5:357-68. [PMID: 24733184 PMCID: PMC3996161 DOI: 10.1007/s13238-014-0038-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2014] [Accepted: 02/18/2014] [Indexed: 11/24/2022]  Open
12
Golovenko D, Manakova E, Zakrys L, Zaremba M, Sasnauskas G, Gražulis S, Siksnys V. Structural insight into the specificity of the B3 DNA-binding domains provided by the co-crystal structure of the C-terminal fragment of BfiI restriction enzyme. Nucleic Acids Res 2014;42:4113-22. [PMID: 24423868 PMCID: PMC3973309 DOI: 10.1093/nar/gkt1368] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
13
Zemlyanskaya EV, Degtyarev SK. Substrate specificity and properties of methyl-directed site-specific DNA endonucleases. Mol Biol 2013. [DOI: 10.1134/s0026893313060186] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
14
Vasu K, Nagamalleswari E, Zahran M, Imhof P, Xu SY, Zhu Z, Chan SH, Nagaraja V. Increasing cleavage specificity and activity of restriction endonuclease KpnI. Nucleic Acids Res 2013;41:9812-24. [PMID: 23963701 PMCID: PMC3834813 DOI: 10.1093/nar/gkt734] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]  Open
15
Vasu K, Nagaraja V. Diverse functions of restriction-modification systems in addition to cellular defense. Microbiol Mol Biol Rev 2013;77:53-72. [PMID: 23471617 PMCID: PMC3591985 DOI: 10.1128/mmbr.00044-12] [Citation(s) in RCA: 405] [Impact Index Per Article: 33.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
16
Belkebir A, Azeddoug H. Metal ion dependence of DNA cleavage by SepMI and EhoI restriction endonucleases. Microbiol Res 2012;168:99-105. [PMID: 23017231 DOI: 10.1016/j.micres.2012.08.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2012] [Revised: 07/04/2012] [Accepted: 08/12/2012] [Indexed: 10/27/2022]
17
Siwek W, Czapinska H, Bochtler M, Bujnicki JM, Skowronek K. Crystal structure and mechanism of action of the N6-methyladenine-dependent type IIM restriction endonuclease R.DpnI. Nucleic Acids Res 2012;40:7563-72. [PMID: 22610857 PMCID: PMC3424567 DOI: 10.1093/nar/gks428] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]  Open
18
Gupta R, Capalash N, Sharma P. Restriction endonucleases: natural and directed evolution. Appl Microbiol Biotechnol 2012;94:583-99. [PMID: 22398859 DOI: 10.1007/s00253-012-3961-z] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2011] [Revised: 02/08/2012] [Accepted: 02/09/2012] [Indexed: 10/28/2022]
19
Belkebir A, Azeddoug H. Characterization of LlaKI, a New Metal Ion-Independent Restriction Endonuclease from Lactococcus lactis KLDS4. ISRN BIOCHEMISTRY 2012;2012:287230. [PMID: 25969755 PMCID: PMC4392985 DOI: 10.5402/2012/287230] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/16/2012] [Accepted: 09/05/2012] [Indexed: 11/23/2022]
20
The CphAII protein from Aquifex aeolicus exhibits a metal-dependent phosphodiesterase activity. Extremophiles 2011;16:45-55. [PMID: 22009263 DOI: 10.1007/s00792-011-0404-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2011] [Accepted: 10/05/2011] [Indexed: 10/16/2022]
21
Vasu K, Saravanan M, Nagaraja V. Endonuclease active site plasticity allows DNA cleavage with diverse alkaline Earth and transition metal ions. ACS Chem Biol 2011;6:934-42. [PMID: 21736285 DOI: 10.1021/cb200107y] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
22
Sasnauskas G, Kostiuk G, Tamulaitis G, Siksnys V. Target site cleavage by the monomeric restriction enzyme BcnI requires translocation to a random DNA sequence and a switch in enzyme orientation. Nucleic Acids Res 2011;39:8844-56. [PMID: 21771860 PMCID: PMC3203586 DOI: 10.1093/nar/gkr588] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
23
Wakamatsu T, Kim K, Uemura Y, Nakagawa N, Kuramitsu S, Masui R. Role of RecJ-like protein with 5'-3' exonuclease activity in oligo(deoxy)nucleotide degradation. J Biol Chem 2010;286:2807-16. [PMID: 21087930 DOI: 10.1074/jbc.m110.161596] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
24
Madhusoodanan UK, Rao DN. Diversity of DNA methyltransferases that recognize asymmetric target sequences. Crit Rev Biochem Mol Biol 2010;45:125-45. [PMID: 20184512 DOI: 10.3109/10409231003628007] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
25
Khan F, Furuta Y, Kawai M, Kaminska KH, Ishikawa K, Bujnicki JM, Kobayashi I. A putative mobile genetic element carrying a novel type IIF restriction-modification system (PluTI). Nucleic Acids Res 2010;38:3019-30. [PMID: 20071747 PMCID: PMC2875022 DOI: 10.1093/nar/gkp1221] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]  Open
26
Zheleznaya LA, Kachalova GS, Artyukh RI, Yunusova AK, Perevyazova TA, Matvienko NI. Nicking endonucleases. BIOCHEMISTRY (MOSCOW) 2010;74:1457-66. [DOI: 10.1134/s0006297909130033] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
27
Yadav VP, Mandal PK, Rao DN, Bhattacharya S. Characterization of the restriction enzyme-like endonuclease encoded by the Entamoeba histolytica non-long terminal repeat retrotransposon EhLINE1. FEBS J 2009;276:7070-82. [DOI: 10.1111/j.1742-4658.2009.07419.x] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
28
González-Cerón G, Miranda-Olivares OJ, Servín-González L. Characterization of the methyl-specific restriction system of Streptomyces coelicolor A3(2) and of the role played by laterally acquired nucleases. FEMS Microbiol Lett 2009;301:35-43. [PMID: 19796133 DOI: 10.1111/j.1574-6968.2009.01790.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]  Open
29
Pingoud V, Wende W, Friedhoff P, Reuter M, Alves J, Jeltsch A, Mones L, Fuxreiter M, Pingoud A. On the divalent metal ion dependence of DNA cleavage by restriction endonucleases of the EcoRI family. J Mol Biol 2009;393:140-60. [PMID: 19682999 DOI: 10.1016/j.jmb.2009.08.011] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2009] [Revised: 08/05/2009] [Accepted: 08/06/2009] [Indexed: 11/18/2022]
30
Type II restriction endonuclease R.Hpy188I belongs to the GIY-YIG nuclease superfamily, but exhibits an unusual active site. BMC STRUCTURAL BIOLOGY 2008;8:48. [PMID: 19014591 PMCID: PMC2630997 DOI: 10.1186/1472-6807-8-48] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/06/2008] [Accepted: 11/14/2008] [Indexed: 11/10/2022]
31
Jakubauskas A, Sasnauskas G, Giedriene J, Janulaitis A. Domain organization and functional analysis of type IIS restriction endonuclease Eco31I. Biochemistry 2008;47:8546-56. [PMID: 18642930 DOI: 10.1021/bi800660u] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
32
Sasnauskas G, Connolly BA, Halford SE, Siksnys V. Template-directed addition of nucleosides to DNA by the BfiI restriction enzyme. Nucleic Acids Res 2008;36:3969-77. [PMID: 18515343 PMCID: PMC2475615 DOI: 10.1093/nar/gkn343] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
33
Orlowski J, Bujnicki JM. Structural and evolutionary classification of Type II restriction enzymes based on theoretical and experimental analyses. Nucleic Acids Res 2008;36:3552-69. [PMID: 18456708 PMCID: PMC2441816 DOI: 10.1093/nar/gkn175] [Citation(s) in RCA: 93] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]  Open
34
Vasu K, Saravanan M, Bujnicki JM, Nagaraja V. Structural integrity of the beta beta alpha-Metal finger motif is required for DNA binding and stable protein-DNA complex formation in R.KpnI. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2008;1784:269-75. [PMID: 18329982 DOI: 10.1016/j.bbapap.2007.07.011] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
35
Kosinski J, Kubareva E, Bujnicki JM. A model of restriction endonuclease MvaI in complex with DNA: a template for interpretation of experimental data and a guide for specificity engineering. Proteins 2007;68:324-36. [PMID: 17407166 DOI: 10.1002/prot.21460] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
36
Gasiunas G, Sasnauskas G, Tamulaitis G, Urbanke C, Razaniene D, Siksnys V. Tetrameric restriction enzymes: expansion to the GIY-YIG nuclease family. Nucleic Acids Res 2007;36:938-49. [PMID: 18086711 PMCID: PMC2241918 DOI: 10.1093/nar/gkm1090] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
37
Bao Y, Higgins L, Zhang P, Chan SH, Laget S, Sweeney S, Lunnen K, Xu SY. Expression and purification of BmrI restriction endonuclease and its N-terminal cleavage domain variants. Protein Expr Purif 2007;58:42-52. [PMID: 18164625 DOI: 10.1016/j.pep.2007.11.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2007] [Revised: 10/17/2007] [Accepted: 11/03/2007] [Indexed: 10/22/2022]
38
Saravanan M, Vasu K, Ghosh S, Nagaraja V. Dual Role for Zn2+ in Maintaining Structural Integrity and Inducing DNA Sequence Specificity in a Promiscuous Endonuclease. J Biol Chem 2007;282:32320-6. [PMID: 17785455 DOI: 10.1074/jbc.m705927200] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
39
Zhang P, Bao Y, Higgins L, Xu SY. Rational design of a chimeric endonuclease targeted to NotI recognition site. Protein Eng Des Sel 2007;20:497-504. [PMID: 17951612 DOI: 10.1093/protein/gzm049] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
40
Chan SH, Bao Y, Ciszak E, Laget S, Xu SY. Catalytic domain of restriction endonuclease BmrI as a cleavage module for engineering endonucleases with novel substrate specificities. Nucleic Acids Res 2007;35:6238-48. [PMID: 17855396 PMCID: PMC2094064 DOI: 10.1093/nar/gkm665] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]  Open
41
Type II restriction endonuclease R.Eco29kI is a member of the GIY-YIG nuclease superfamily. BMC STRUCTURAL BIOLOGY 2007;7:48. [PMID: 17626614 PMCID: PMC1952068 DOI: 10.1186/1472-6807-7-48] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/12/2007] [Accepted: 07/12/2007] [Indexed: 01/21/2023]
42
Miyazono KI, Watanabe M, Kosinski J, Ishikawa K, Kamo M, Sawasaki T, Nagata K, Bujnicki JM, Endo Y, Tanokura M, Kobayashi I. Novel protein fold discovered in the PabI family of restriction enzymes. Nucleic Acids Res 2007;35:1908-18. [PMID: 17332011 PMCID: PMC1874622 DOI: 10.1093/nar/gkm091] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2006] [Revised: 02/01/2007] [Accepted: 02/01/2007] [Indexed: 11/14/2022]  Open
43
Schäfer P, Cymerman IA, Bujnicki JM, Meiss G. Human lysosomal DNase IIalpha contains two requisite PLD-signature (HxK) motifs: evidence for a pseudodimeric structure of the active enzyme species. Protein Sci 2007;16:82-91. [PMID: 17192590 PMCID: PMC2222834 DOI: 10.1110/ps.062535307] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
44
Cymerman IA, Obarska A, Skowronek KJ, Lubys A, Bujnicki JM. Identification of a new subfamily of HNH nucleases and experimental characterization of a representative member, HphI restriction endonuclease. Proteins 2007;65:867-76. [PMID: 17029241 DOI: 10.1002/prot.21156] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
45
Sasnauskas G, Connolly BA, Halford SE, Siksnys V. Site-specific DNA transesterification catalyzed by a restriction enzyme. Proc Natl Acad Sci U S A 2007;104:2115-20. [PMID: 17267608 PMCID: PMC1785359 DOI: 10.1073/pnas.0608689104] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
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Orlowski J, Boniecki M, Bujnicki JM. I-Ssp6803I: the first homing endonuclease from the PD-(D/E)XK superfamily exhibits an unusual mode of DNA recognition. Bioinformatics 2007;23:527-30. [PMID: 17242028 DOI: 10.1093/bioinformatics/btm007] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
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Kriukiene E. Domain organization and metal ion requirement of the Type IIS restriction endonuclease MnlI. FEBS Lett 2006;580:6115-22. [PMID: 17055493 DOI: 10.1016/j.febslet.2006.09.075] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2006] [Revised: 09/22/2006] [Accepted: 09/28/2006] [Indexed: 11/26/2022]
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Gemmen GJ, Millin R, Smith DE. DNA looping by two-site restriction endonucleases: heterogeneous probability distributions for loop size and unbinding force. Nucleic Acids Res 2006;34:2864-77. [PMID: 16723432 PMCID: PMC1474071 DOI: 10.1093/nar/gkl382] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
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Tamulaitis G, Sasnauskas G, Mucke M, Siksnys V. Simultaneous binding of three recognition sites is necessary for a concerted plasmid DNA cleavage by EcoRII restriction endonuclease. J Mol Biol 2006;358:406-19. [PMID: 16529772 DOI: 10.1016/j.jmb.2006.02.024] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2005] [Revised: 02/08/2006] [Accepted: 02/09/2006] [Indexed: 11/28/2022]
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Skowronek KJ, Kosinski J, Bujnicki JM. Theoretical model of restriction endonuclease HpaI in complex with DNA, predicted by fold recognition and validated by site-directed mutagenesis. Proteins 2006;63:1059-68. [PMID: 16498623 DOI: 10.1002/prot.20920] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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