메뉴 건너뛰기




Volumn 23, Issue 5, 2007, Pages 527-530

I-Ssp6803I: The first homing endonuclease from the PD-(D/E)XK superfamily exhibits an unusual mode of DNA recognition

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL ENZYME; DNA; ENDONUCLEASE; HOMING ENDONUCLEASE; RESTRICTION ENDONUCLEASE; TYPE II SITE SPECIFIC DEOXYRIBONUCLEASE; UNCLASSIFIED DRUG;

EID: 34047130851     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btm007     Document Type: Article
Times cited : (34)

References (25)
  • 1
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul,S.F.D. et al. (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.D.1
  • 2
    • 0034664813 scopus 로고    scopus 로고
    • Survey and Summary: Holliday junction resolvases and related nucleases: Identification of new families, phyletic distribution and evolutionary trajectories
    • Aravind,L. et al. (2000) Survey and Summary: Holliday junction resolvases and related nucleases: Identification of new families, phyletic distribution and evolutionary trajectories. Nucleic Acids Res., 28, 3417-3432.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 3417-3432
    • Aravind, L.1
  • 4
    • 0028137054 scopus 로고
    • Self-splicing group I intron in cyanobacterial initiator methionine tRNA: Evidence for lateral transfer of introns in bacteria
    • Biniszkiewicz,D. et al. (1994) Self-splicing group I intron in cyanobacterial initiator methionine tRNA: Evidence for lateral transfer of introns in bacteria. EMBO J., 13, 4629-4635.
    • (1994) EMBO J. , vol.13 , pp. 4629-4635
    • Biniszkiewicz, D.1
  • 5
    • 1842484092 scopus 로고    scopus 로고
    • Protein fragment reconstruction using various modeling techniques
    • Boniecki,M. et al. (2003) Protein fragment reconstruction using various modeling techniques. J. Comput. Aided Mol. Des., 17, 725-738.
    • (2003) J. Comput. Aided Mol. Des. , vol.17 , pp. 725-738
    • Boniecki, M.1
  • 6
    • 0035107529 scopus 로고    scopus 로고
    • A novel group I intron-encoded endo-nuclease specific for the anticodon region of tRNA(fMet) genes
    • Bonocora,R.P. and Shub,D.A. (2001) A novel group I intron-encoded endo-nuclease specific for the anticodon region of tRNA(fMet) genes. Mol. Microbiol., 39, 1299-1306.
    • (2001) Mol. Microbiol. , vol.39 , pp. 1299-1306
    • Bonocora, R.P.1    Shub, D.A.2
  • 7
    • 0141954129 scopus 로고    scopus 로고
    • Crystallographic and bioinformatic studies on restriction endonucleases: Inference of evolutionary relationships in the "midnight zone" of homology
    • Bujnicki,J.M. (2003) Crystallographic and bioinformatic studies on restriction endonucleases: Inference of evolutionary relationships in the "midnight zone" of homology. Curr. Protein Pept. Sci., 4, 327-337.
    • (2003) Curr. Protein Pept. Sci. , vol.4 , pp. 327-337
    • Bujnicki, J.M.1
  • 8
    • 0035150384 scopus 로고    scopus 로고
    • Polyphyletic evolution of type II restriction enzymes revisited: Two independent sources of second-hand folds revealed
    • Bujnicki,J.M. et al. (2001) Polyphyletic evolution of type II restriction enzymes revisited: Two independent sources of second-hand folds revealed. Trends Biochem. Sci., 26, 9-11.
    • (2001) Trends Biochem. Sci. , vol.26 , pp. 9-11
    • Bujnicki, J.M.1
  • 9
    • 0347383758 scopus 로고    scopus 로고
    • Modeller: Generation and refinement of homologybased protein structure models
    • Fiser,A. and Sali,A. (2003) Modeller: Generation and refinement of homologybased protein structure models. Methods Enzymol, 374, 461-491.
    • (2003) Methods Enzymol , vol.374 , pp. 461-491
    • Fiser, A.1    Sali, A.2
  • 10
    • 27644485012 scopus 로고    scopus 로고
    • Structure of the metal-independent restriction enzyme BfiI reveals fusion of a specific DNA-binding domain with a nonspecific nuclease
    • Grazulis,S. et al. (2005) Structure of the metal-independent restriction enzyme BfiI reveals fusion of a specific DNA-binding domain with a nonspecific nuclease. Proc. Natl. Acad Sci. USA, 102, 15797-15802.
    • (2005) Proc. Natl. Acad Sci. USA , vol.102 , pp. 15797-15802
    • Grazulis, S.1
  • 11
    • 0033634859 scopus 로고    scopus 로고
    • Unexpected structural diversity in DNA recombination: The restriction endonuclease connection
    • Hickman,A.B. et al. (2000) Unexpected structural diversity in DNA recombination: The restriction endonuclease connection. Mol. Cell, 5, 1025-1034.
    • (2000) Mol. Cell , vol.5 , pp. 1025-1034
    • Hickman, A.B.1
  • 12
    • 0242362160 scopus 로고    scopus 로고
    • A "Frankenstein's monster" approach to comparative modeling: Merging the finest fragments of Fold-Recognition models and iterative model refinement aided by 3D structure evaluation
    • Kosinski,J. et al. (2003) A "Frankenstein's monster" approach to comparative modeling: Merging the finest fragments of Fold-Recognition models and iterative model refinement aided by 3D structure evaluation. Proteins, 53 (Suppl 6), 369-379.
    • (2003) Proteins , vol.53 , Issue.SUPPL. 6 , pp. 369-379
    • Kosinski, J.1
  • 13
    • 25444522883 scopus 로고    scopus 로고
    • The PD-(D/E)XK superfamily revisited: Identification of new members among proteins involved in DNA metabolism and functional predictions for domains of (hitherto) unknown function
    • Kosinski,J. et al. (2005a) The PD-(D/E)XK superfamily revisited: identification of new members among proteins involved in DNA metabolism and functional predictions for domains of (hitherto) unknown function. BMC Bioinformatics, 6, 172.
    • (2005) BMC Bioinformatics , vol.6 , pp. 172
    • Kosinski, J.1
  • 14
    • 30344466041 scopus 로고    scopus 로고
    • FRankenstein becomes a cyborg: The automatic recombination and realignment of fold recognition models in CASP6
    • Kosinski,J. et al. (2005b) FRankenstein becomes a cyborg: The automatic recombination and realignment of fold recognition models in CASP6. Proteins, 61 (Suppl 7), 106-113.
    • (2005) Proteins , vol.61 , Issue.SUPPL. 7 , pp. 106-113
    • Kosinski, J.1
  • 15
    • 0043123216 scopus 로고    scopus 로고
    • GeneSilico protein structure prediction meta-server
    • Kurowski,M.A. and Bujnicki,J.M. (2003) GeneSilico protein structure prediction meta-server. Nucleic Acids Res., 31, 3305-3307.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3305-3307
    • Kurowski, M.A.1    Bujnicki, J.M.2
  • 16
    • 0242396923 scopus 로고    scopus 로고
    • 3DNA: A software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures
    • Lu,X.J. and Olson,W.K. (2003) 3DNA: A software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures. Nucleic Acids Res., 31, 5108-5121.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 5108-5121
    • Lu, X.J.1    Olson, W.K.2
  • 17
    • 0034780030 scopus 로고    scopus 로고
    • Pcons: A neural-network-based consensus predictor that improves fold recognition
    • Lundstrom,J. et al. (2001) Pcons: A neural-network-based consensus predictor that improves fold recognition. Protein Sci., 10, 2354-2362.
    • (2001) Protein Sci. , vol.10 , pp. 2354-2362
    • Lundstrom, J.1
  • 18
    • 0032530311 scopus 로고    scopus 로고
    • Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence
    • Newman,M. et al. (1998) Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence. EMBO J., 17, 5466-5476.
    • (1998) EMBO J. , vol.17 , pp. 5466-5476
    • Newman, M.1
  • 19
    • 0035081705 scopus 로고    scopus 로고
    • Crystal structure of the archaeal holliday junction resolvase Hjc and implications for DNA recognition
    • Nishino,T. et al. (2001) Crystal structure of the archaeal holliday junction resolvase Hjc and implications for DNA recognition. Structure (Camb), 9, 197-204.
    • (2001) Structure (Camb) , vol.9 , pp. 197-204
    • Nishino, T.1
  • 20
    • 27344436659 scopus 로고    scopus 로고
    • Scalable molecular dynamics with NAMD
    • Phillips,J.C. et al. (2005) Scalable molecular dynamics with NAMD. J. Comput. Chem., 26, 1781-1802.
    • (2005) J. Comput. Chem. , vol.26 , pp. 1781-1802
    • Phillips, J.C.1
  • 21
    • 17044403057 scopus 로고    scopus 로고
    • Type II restriction endonucleases: Structure and mechanism
    • Pingoud,A. et al. (2005) Type II restriction endonucleases: Structure and mechanism. Cell Mol. Life Sci., 62, 685-707.
    • (2005) Cell Mol. Life Sci. , vol.62 , pp. 685-707
    • Pingoud, A.1
  • 23
    • 0034613269 scopus 로고    scopus 로고
    • Novel subtype of type IIs restriction enzymes. BfiI endonuclease exhibits similarities to the EDTA-resistant nuclease Nuc of Salmonella typhimurium
    • Sapranauskas,R. et al. (2000) Novel subtype of type IIs restriction enzymes. BfiI endonuclease exhibits similarities to the EDTA-resistant nuclease Nuc of Salmonella typhimurium. J. Biol. Chem., 275, 30878-30885.
    • (2000) J. Biol. Chem. , vol.275 , pp. 30878-30885
    • Sapranauskas, R.1
  • 24
    • 33644756595 scopus 로고    scopus 로고
    • Homing endonuclease structure and function
    • Stoddard,B.L. (2005) Homing endonuclease structure and function. Q. Rev. Biophys., 1-47.
    • (2005) Q. Rev. Biophys. , pp. 1-47
    • Stoddard, B.L.1
  • 25
    • 33645504195 scopus 로고    scopus 로고
    • Identification of correct regions in protein models using structural, alignment, and consensus information
    • Wallner,B. and Elofsson,A. (2006) Identification of correct regions in protein models using structural, alignment, and consensus information. Protein Sci., 15, 900-913.
    • (2006) Protein Sci. , vol.15 , pp. 900-913
    • Wallner, B.1    Elofsson, A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.