Cargando…

Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes

BACKGROUND: GmrSD is a modification-dependent restriction endonuclease that specifically targets and cleaves glucosylated hydroxymethylcytosine (glc-HMC) modified DNA. It is encoded either as two separate single-domain GmrS and GmrD proteins or as a single protein carrying both domains. Previous stu...

Descripción completa

Detalles Bibliográficos
Autores principales:	Machnicka, Magdalena A., Kaminska, Katarzyna H., Dunin-Horkawicz, Stanislaw, Bujnicki, Janusz M.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2015
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4619093/ https://www.ncbi.nlm.nih.gov/pubmed/26493560 http://dx.doi.org/10.1186/s12859-015-0773-z

Ejemplares similares

Expression and purification of a single-chain Type IV restriction enzyme Eco94GmrSD and determination of its substrate preference
por: He, Xinyi, et al.
Publicado: (2015)

Phylogenomic analysis of the GIY-YIG nuclease superfamily
por: Dunin-Horkawicz, Stanislaw, et al.
Publicado: (2006)

Delineation of structural domains and identification of functionally important residues in DNA repair enzyme exonuclease VII
por: Poleszak, Katarzyna, et al.
Publicado: (2012)

Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases
por: Tkaczuk, Karolina L, et al.
Publicado: (2007)

MODOMICS: a database of RNA modification pathways. 2008 update
por: Czerwoniec, Anna, et al.
Publicado: (2009)

Loss of Conserved Noncoding RNAs in Genomes of Bacterial Endosymbionts
por: Matelska, Dorota, et al.
Publicado: (2016)

RRMdb—an evolutionary-oriented database of RNA recognition motif sequences
por: Nowacka, Martyna, et al.
Publicado: (2019)

MODOMICS: a database of RNA modification pathways
por: Dunin-Horkawicz, Stanislaw, et al.
Publicado: (2006)

S6:S18 ribosomal protein complex interacts with a structural motif present in its own mRNA
por: Matelska, Dorota, et al.
Publicado: (2013)

MODOMICS: a database of RNA modification pathways—2013 update
por: Machnicka, Magdalena A., et al.
Publicado: (2013)

The RNase H-like superfamily: new members, comparative structural analysis and evolutionary classification
por: Majorek, Karolina A., et al.
Publicado: (2014)

The yfhQ gene of Escherichia coli encodes a tRNA:Cm32/Um32 methyltransferase
por: Purta, Elzbieta, et al.
Publicado: (2006)

Phylogenomic identification of five new human homologs of the DNA repair enzyme AlkB
por: Kurowski, Michal A, et al.
Publicado: (2003)

Computational modeling of RNA 3D structures, with the aid of experimental restraints
por: Magnus, Marcin, et al.
Publicado: (2014)

Integration of GMR Sensors with Different Technologies
por: Cubells-Beltrán, María-Dolores, et al.
Publicado: (2016)

Genome-wide survey of codons under diversifying selection in a highly recombining bacterial species, Helicobacter pylori
por: Yahara, Koji, et al.
Publicado: (2016)

RNArchitecture: a database and a classification system of RNA families, with a focus on structural information
por: Boccaletto, Pietro, et al.
Publicado: (2018)

localpdb—a Python package to manage protein structures and their annotations
por: Ludwiczak, Jan, et al.
Publicado: (2022)

Identification of a new family of putative PD-(D/E)XK nucleases with unusual phylogenomic distribution and a new type of the active site
por: Feder, Marcin, et al.
Publicado: (2005)

Cloning and analysis of a bifunctional methyltransferase/restriction endonuclease TspGWI, the prototype of a Thermus sp. enzyme family
por: Zylicz-Stachula, Agnieszka, et al.
Publicado: (2009)

Structural and evolutionary classification of Type II restriction enzymes based on theoretical and experimental analyses
por: Orlowski, Jerzy, et al.
Publicado: (2008)

The Structure and Topology of α-Helical Coiled Coils
por: Lupas, Andrei N., et al.
Publicado: (2017)

A composite double-/single-stranded RNA-binding region in protein Prp3 supports tri-snRNP stability and splicing
por: Liu, Sunbin, et al.
Publicado: (2015)

Novel protein fold discovered in the PabI family of restriction enzymes
por: Miyazono, Ken-ichi, et al.
Publicado: (2007)

Routes for GMR-Sensor Design in Non-Destructive Testing
por: Pelkner, Matthias, et al.
Publicado: (2012)

Type II restriction endonuclease R.Hpy188I belongs to the GIY-YIG nuclease superfamily, but exhibits an unusual active site
por: Kaminska, Katarzyna H, et al.
Publicado: (2008)

Siah-1-interacting protein regulates mutated huntingtin protein aggregation in Huntington’s disease models
por: Latoszek, Ewelina, et al.
Publicado: (2022)

Petri net–based model of the human DNA base excision repair pathway
por: Radom, Marcin, et al.
Publicado: (2019)

An enhanced teaching interface for a robot using DMP and GMR
por: Li, Chunxu, et al.
Publicado: (2018)

Detection of Surface and Subsurface Flaws with Miniature GMR-Based Gradiometer
por: Nguyen, Huu-Thang, et al.
Publicado: (2022)

Sequence-dependent enhancement of hydrolytic deamination of cytosines in DNA by the restriction enzyme PspGI
por: Carpenter, Michael, et al.
Publicado: (2006)

pLM-BLAST: distant homology detection based on direct comparison of sequence representations from protein language models
por: Kaminski, Kamil, et al.
Publicado: (2023)

A putative mobile genetic element carrying a novel type IIF restriction-modification system (PluTI)
por: Khan, Feroz, et al.
Publicado: (2010)

Giant magnetoresistance (GMR) sensors: from basis to state-of-the-art applications
por: Reig, Candid, et al.
Publicado: (2013)

Extending the GMR Current Measurement Range with a Counteracting Magnetic Field
por: Poon, Tin Yan, et al.
Publicado: (2013)

Design and Fabrication of Full Wheatstone-Bridge-Based Angular GMR Sensors
por: Yan, Shaohua, et al.
Publicado: (2018)

Functional and Bioinformatics Analysis of Two Campylobacter jejuni Homologs of the Thiol-Disulfide Oxidoreductase, DsbA
por: Grabowska, Anna D., et al.
Publicado: (2014)

Quasi-Static Current Measurement with Field-Modulated Spin-Valve GMR Sensors †
por: Jeng, Jen-Tzong, et al.
Publicado: (2019)

RNApathwaysDB—a database of RNA maturation and decay pathways
por: Milanowska, Kaja, et al.
Publicado: (2013)

C8J_1298, a bifunctional thiol oxidoreductase of Campylobacter jejuni, affects Dsb (disulfide bond) network functioning
por: Banaś, Anna Marta, et al.
Publicado: (2020)

Cannot write session to /tmp/vufind_sessions/sess_bose7s6mtl2n0g4a83hn4qil3c