Marcin Feder
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Explore the profile of Marcin Feder including associated specialties, affiliations and a list of published articles.
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25
Citations
862
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Recent Articles
11.
Dunin-Horkawicz S, Feder M, Bujnicki J
BMC Genomics
. 2006 May;
7:98.
PMID: 16646971
Background: The GIY-YIG domain was initially identified in homing endonucleases and later in other selfish mobile genetic elements (including restriction enzymes and non-LTR retrotransposons) and in enzymes involved in DNA...
12.
Obarska A, Blundell A, Feder M, Vejsadova S, Sisakova E, Weiserova M, et al.
Nucleic Acids Res
. 2006 Apr;
34(7):1992-2005.
PMID: 16614449
Recent publication of crystal structures for the putative DNA-binding subunits (HsdS) of the functionally uncharacterized Type I restriction-modification (R-M) enzymes MjaXIP and MgeORF438 have provided a convenient structural template for...
13.
Dunin-Horkawicz S, Czerwoniec A, Gajda M, Feder M, Grosjean H, Bujnicki J
Nucleic Acids Res
. 2005 Dec;
34(Database issue):D145-9.
PMID: 16381833
MODOMICS is the first comprehensive database resource for systems biology of RNA modification. It integrates information about the chemical structure of modified nucleosides, their localization in RNA sequences, pathways of...
14.
Kosinski J, Gajda M, Cymerman I, Kurowski M, Pawlowski M, Boniecki M, et al.
Proteins
. 2005 Sep;
61 Suppl 7:106-113.
PMID: 16187351
In the course of CASP6, we generated models for all targets using a new version of the "FRankenstein's monster approach." Previously (in CASP5) we were able to build many very...
15.
Kosinski J, Feder M, Bujnicki J
BMC Bioinformatics
. 2005 Jul;
6:172.
PMID: 16011798
Background: The PD-(D/E)XK nuclease superfamily, initially identified in type II restriction endonucleases and later in many enzymes involved in DNA recombination and repair, is one of the most challenging targets...
16.
Purta E, van Vliet F, Tricot C, De Bie L, Feder M, Skowronek K, et al.
Proteins
. 2005 Mar;
59(3):482-8.
PMID: 15789416
The Escherichia coli TrmB protein and its Saccharomyces cerevisiae ortholog Trm8p catalyze the S-adenosyl-L-methionine-dependent formation of 7-methylguanosine at position 46 (m7G46) in tRNA. To learn more about the sequence-structure-function relationships...
17.
Feder M, Bujnicki J
BMC Genomics
. 2005 Feb;
6:21.
PMID: 15720711
Background: Prediction of structure and function for uncharacterized protein families by identification of evolutionary links to characterized families and known structures is one of the cornerstones of genomics. Theoretical assignment...
18.
Bujnicki J, Feder M, Ayres C, Redman K
Nucleic Acids Res
. 2004 May;
32(8):2453-63.
PMID: 15121902
Three types of methyltransferases (MTases) generate 5-methylpyrimidine in nucleic acids, forming m5U in RNA, m5C in RNA and m5C in DNA. The DNA:m5C MTases have been extensively studied by crystallographic,...
19.
Kosinski J, Cymerman I, Feder M, Kurowski M, Sasin J, Bujnicki J
Proteins
. 2003 Oct;
53 Suppl 6:369-79.
PMID: 14579325
We applied a new multi-step protocol to predict the structures of all targets during CASP5, regardless of their potential category. 1) We used diverse fold-recognition (FR) methods to generate initial...
20.
Maravic G, Feder M, Pongor S, Flogel M, Bujnicki J
J Mol Biol
. 2003 Aug;
332(1):99-109.
PMID: 12946350
Methyltransferases (MTases) from the Erm family catalyze S-adenosyl-L-methionine-dependent modification of a specific adenine residue in bacterial 23S rRNA, thereby conferring resistance to clinically important macrolide, lincosamide and streptogramin B antibiotics....