116 related articles for article (PubMed ID: 11200231)
1. Grouping together highly diverged PD-(D/E)XK nucleases and identification of novel superfamily members using structure-guided alignment of sequence profiles.
Bujnicki JM; Rychlewski L
J Mol Microbiol Biotechnol; 2001 Jan; 3(1):69-72. PubMed ID: 11200231
[TBL] [Abstract][Full Text] [Related]
2. 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; Feder M; Bujnicki JM
BMC Bioinformatics; 2005 Jul; 6():172. PubMed ID: 16011798
[TBL] [Abstract][Full Text] [Related]
3. Identification of a new subfamily of HNH nucleases and experimental characterization of a representative member, HphI restriction endonuclease.
Cymerman IA; Obarska A; Skowronek KJ; Lubys A; Bujnicki JM
Proteins; 2006 Dec; 65(4):867-76. PubMed ID: 17029241
[TBL] [Abstract][Full Text] [Related]
4. Structure of Xanthomonas axonopodis pv. citri YaeQ reveals a new compact protein fold built around a variation of the PD-(D/E)XK nuclease motif.
Guzzo CR; Nagem RA; Barbosa JA; Farah CS
Proteins; 2007 Nov; 69(3):644-51. PubMed ID: 17623842
[TBL] [Abstract][Full Text] [Related]
5. I-Ssp6803I: the first homing endonuclease from the PD-(D/E)XK superfamily exhibits an unusual mode of DNA recognition.
Orlowski J; Boniecki M; Bujnicki JM
Bioinformatics; 2007 Mar; 23(5):527-30. PubMed ID: 17242028
[TBL] [Abstract][Full Text] [Related]
6. Theoretical model of restriction endonuclease HpaI in complex with DNA, predicted by fold recognition and validated by site-directed mutagenesis.
Skowronek KJ; Kosinski J; Bujnicki JM
Proteins; 2006 Jun; 63(4):1059-68. PubMed ID: 16498623
[TBL] [Abstract][Full Text] [Related]
7. Unusual evolutionary history of the tRNA splicing endonuclease EndA: relationship to the LAGLIDADG and PD-(D/E)XK deoxyribonucleases.
Bujnicki JM; Rychlewski L
Protein Sci; 2001 Mar; 10(3):656-60. PubMed ID: 11344334
[TBL] [Abstract][Full Text] [Related]
8. A model of restriction endonuclease MvaI in complex with DNA: a template for interpretation of experimental data and a guide for specificity engineering.
Kosinski J; Kubareva E; Bujnicki JM
Proteins; 2007 Jul; 68(1):324-36. PubMed ID: 17407166
[TBL] [Abstract][Full Text] [Related]
9. Realm of PD-(D/E)XK nuclease superfamily revisited: detection of novel families with modified transitive meta profile searches.
Knizewski L; Kinch LN; Grishin NV; Rychlewski L; Ginalski K
BMC Struct Biol; 2007 Jun; 7():40. PubMed ID: 17584917
[TBL] [Abstract][Full Text] [Related]
10. The crystal structure of the rare-cutting restriction enzyme SdaI reveals unexpected domain architecture.
Tamulaitiene G; Jakubauskas A; Urbanke C; Huber R; Grazulis S; Siksnys V
Structure; 2006 Sep; 14(9):1389-400. PubMed ID: 16962970
[TBL] [Abstract][Full Text] [Related]
11. Identification of new homologs of PD-(D/E)XK nucleases by support vector machines trained on data derived from profile-profile alignments.
Laganeckas M; Margelevicius M; Venclovas C
Nucleic Acids Res; 2011 Mar; 39(4):1187-96. PubMed ID: 20961958
[TBL] [Abstract][Full Text] [Related]
12. Evolutionary relationship of Alw26I, Eco31I and Esp3I, restriction endonucleases that recognise overlapping sequences.
Bitinaite J; Mitkaite G; Dauksaite V; Jakubauskas A; Timinskas A; Vaisvila R; Lubys A; Janulaitis A
Mol Genet Genomics; 2002 Jul; 267(5):664-72. PubMed ID: 12172806
[TBL] [Abstract][Full Text] [Related]
13. Structural analysis of the heterodimeric type IIS restriction endonuclease R.BspD6I acting as a complex between a monomeric site-specific nickase and a catalytic subunit.
Kachalova GS; Rogulin EA; Yunusova AK; Artyukh RI; Perevyazova TA; Matvienko NI; Zheleznaya LA; Bartunik HD
J Mol Biol; 2008 Dec; 384(2):489-502. PubMed ID: 18835275
[TBL] [Abstract][Full Text] [Related]
14. A theoretical model of restriction endonuclease NlaIV in complex with DNA, predicted by fold recognition and validated by site-directed mutagenesis and circular dichroism spectroscopy.
Chmiel AA; Radlinska M; Pawlak SD; Krowarsch D; Bujnicki JM; Skowronek KJ
Protein Eng Des Sel; 2005 Apr; 18(4):181-9. PubMed ID: 15849215
[TBL] [Abstract][Full Text] [Related]
15. [Analysis, identification and correction of some errors of model refseqs appeared in NCBI Human Gene Database by in silico cloning and experimental verification of novel human genes].
Zhang DL; Ji L; Li YD
Yi Chuan Xue Bao; 2004 May; 31(5):431-43. PubMed ID: 15478601
[TBL] [Abstract][Full Text] [Related]
16. A homology model of restriction endonuclease SfiI in complex with DNA.
Chmiel AA; Bujnicki JM; Skowronek KJ
BMC Struct Biol; 2005 Jan; 5():2. PubMed ID: 15667656
[TBL] [Abstract][Full Text] [Related]
17. Inference of relationships in the 'twilight zone' of homology using a combination of bioinformatics and site-directed mutagenesis: a case study of restriction endonucleases Bsp6I and PvuII.
Pawlak SD; Radlinska M; Chmiel AA; Bujnicki JM; Skowronek KJ
Nucleic Acids Res; 2005; 33(2):661-71. PubMed ID: 15684412
[TBL] [Abstract][Full Text] [Related]
18. Type II restriction endonucleases: structure and mechanism.
Pingoud A; Fuxreiter M; Pingoud V; Wende W
Cell Mol Life Sci; 2005 Mar; 62(6):685-707. PubMed ID: 15770420
[TBL] [Abstract][Full Text] [Related]
19. Structural and evolutionary classification of Type II restriction enzymes based on theoretical and experimental analyses.
Orlowski J; Bujnicki JM
Nucleic Acids Res; 2008 Jun; 36(11):3552-69. PubMed ID: 18456708
[TBL] [Abstract][Full Text] [Related]
20. Type II restriction endonuclease R.Eco29kI is a member of the GIY-YIG nuclease superfamily.
Ibryashkina EM; Zakharova MV; Baskunov VB; Bogdanova ES; Nagornykh MO; Den'mukhamedov MM; Melnik BS; Kolinski A; Gront D; Feder M; Solonin AS; Bujnicki JM
BMC Struct Biol; 2007 Jul; 7():48. PubMed ID: 17626614
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
