Cargando…

Kinetic mechanism and fidelity of nick sealing by Escherichia coli NAD(+)-dependent DNA ligase (LigA)

Escherichia coli DNA ligase (EcoLigA) repairs 3′-OH/5′-PO(4) nicks in duplex DNA via reaction of LigA with NAD(+) to form a covalent LigA-(lysyl-Nζ)–AMP intermediate (step 1); transfer of AMP to the nick 5′-PO(4) to form an AppDNA intermediate (step 2); and attack of the nick 3′-OH on AppDNA to form...

Descripción completa

Detalles Bibliográficos
Autores principales:	Chauleau, Mathieu, Shuman, Stewart
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2016
Materias:	Nucleic Acid Enzymes
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4797296/ https://www.ncbi.nlm.nih.gov/pubmed/26857547 http://dx.doi.org/10.1093/nar/gkw049

Ejemplares similares

Deinococcus radiodurans RNA ligase exemplifies a novel ligase clade with a distinctive N-terminal module that is important for 5′-PO(4) nick sealing and ligase adenylylation but dispensable for phosphodiester formation at an adenylylated nick
por: Raymond, Amy, et al.
Publicado: (2007)

DNA(3′)pp(5′)G de-capping activity of aprataxin: effect of cap nucleoside analogs and structural basis for guanosine recognition
por: Chauleau, Mathieu, et al.
Publicado: (2015)

Structural insights to the metal specificity of an archaeal member of the LigD 3′-phosphoesterase DNA repair enzyme family
por: Das, Ushati, et al.
Publicado: (2012)

Structures and activities of archaeal members of the LigD 3′-phosphoesterase DNA repair enzyme superfamily
por: Smith, Paul, et al.
Publicado: (2011)

Kinetic mechanism of nick sealing by T4 RNA ligase 2 and effects of 3′-OH base mispairs and damaged base lesions
por: Chauleau, Mathieu, et al.
Publicado: (2013)

Characterization of Agrobacterium tumefaciens DNA ligases C and D
por: Zhu, Hui, et al.
Publicado: (2007)

GEN1 promotes Holliday junction resolution by a coordinated nick and counter-nick mechanism
por: Chan, Ying Wai, et al.
Publicado: (2015)

Structure and two-metal mechanism of fungal tRNA ligase
por: Banerjee, Ankan, et al.
Publicado: (2019)

NAD(+)-dependent synthesis of a 5′-phospho-ADP-ribosylated RNA/DNA cap by RNA 2′-phosphotransferase Tpt1
por: Munir, Annum, et al.
Publicado: (2018)

Structural basis for the GTP specificity of the RNA kinase domain of fungal tRNA ligase
por: Remus, Barbara S., et al.
Publicado: (2017)

Caveat mutator: alanine substitutions for conserved amino acids in RNA ligase elicit unexpected rearrangements of the active site for lysine adenylylation
por: Unciuleac, Mihaela-Carmen, et al.
Publicado: (2020)

Solution structure and DNA-binding properties of the phosphoesterase domain of DNA ligase D
por: Natarajan, Aswin, et al.
Publicado: (2012)

Discovery of natural nicking endonucleases Nb.BsrDI and Nb.BtsI and engineering of top-strand nicking variants from BsrDI and BtsI
por: Xu, Shuang-Yong, et al.
Publicado: (2007)

Dynamics of DNA nicking and unwinding by the RepC–PcrA complex
por: Carrasco, Carolina, et al.
Publicado: (2020)

Natural zinc ribbon HNH endonucleases and engineered zinc finger nicking endonuclease
por: Xu, Shuang-yong, et al.
Publicado: (2013)

Atomic structures of the RNA end-healing 5′-OH kinase and 2′,3′-cyclic phosphodiesterase domains of fungal tRNA ligase: conformational switches in the kinase upon binding of the GTP phosphate donor
por: Banerjee, Ankan, et al.
Publicado: (2019)

Force and twist dependence of RepC nicking activity on torsionally-constrained DNA molecules
por: Pastrana, Cesar L., et al.
Publicado: (2016)

Leishmania actin binds and nicks kDNA as well as inhibits decatenation activity of type II topoisomerase
por: Kapoor, Prabodh, et al.
Publicado: (2010)

Engineering Nt.BtsCI and Nb.BtsCI nicking enzymes and applications in generating long overhangs
por: Too, Priscilla Hiu-Mei, et al.
Publicado: (2010)

Systematic in vitro specificity profiling reveals nicking defects in natural and engineered CRISPR–Cas9 variants
por: Murugan, Karthik, et al.
Publicado: (2021)

Critical amino acids in Escherichia coli UmuC responsible for sugar discrimination and base-substitution fidelity
por: Vaisman, Alexandra, et al.
Publicado: (2012)

MGME1 processes flaps into ligatable nicks in concert with DNA polymerase γ during mtDNA replication
por: Uhler, Jay P., et al.
Publicado: (2016)

DNA gyrase with a single catalytic tyrosine can catalyze DNA supercoiling by a nicking-closing mechanism
por: Gubaev, Airat, et al.
Publicado: (2016)

Degenerate sequence recognition by the monomeric restriction enzyme: single mutation converts BcnI into a strand-specific nicking endonuclease
por: Kostiuk, Georgij, et al.
Publicado: (2011)

Pyrophosphate release acts as a kinetic checkpoint during high-fidelity DNA replication by the Staphylococcus aureus replicative polymerase PolC
por: Fagan, Sean P, et al.
Publicado: (2021)

Human MUS81-EME2 can cleave a variety of DNA structures including intact Holliday junction and nicked duplex
por: Amangyeld, Tamir, et al.
Publicado: (2014)

Nicked-site substrates for a serine recombinase reveal enzyme–DNA communications and an essential tethering role of covalent enzyme–DNA linkages
por: Olorunniji, Femi J., et al.
Publicado: (2015)

A junction branch point adjacent to a DNA backbone nick directs substrate cleavage by Saccharomyces cerevisiae Mus81-Mms4
por: Ehmsen, Kirk Tevebaugh, et al.
Publicado: (2009)

The monomeric GIY-YIG homing endonuclease I-BmoI uses a molecular anchor and a flexible tether to sequentially nick DNA
por: Kleinstiver, Benjamin P., et al.
Publicado: (2013)

The Mus81-Mms4 structure-selective endonuclease requires nicked DNA junctions to undergo conformational changes and bend its DNA substrates for cleavage
por: Mukherjee, Sucheta, et al.
Publicado: (2014)

High fidelity TNA synthesis by Therminator polymerase
por: Ichida, Justin K., et al.
Publicado: (2005)

Characterization of the 2′,3′ cyclic phosphodiesterase activities of Clostridium thermocellum polynucleotide kinase-phosphatase and bacteriophage λ phosphatase
por: Keppetipola, Niroshika, et al.
Publicado: (2007)

Mycobacterium smegmatis SftH exemplifies a distinctive clade of superfamily II DNA-dependent ATPases with 3′ to 5′ translocase and helicase activities
por: Yakovleva, Lyudmila, et al.
Publicado: (2012)

Mechanism of RNA 2′,3′-cyclic phosphate end healing by T4 polynucleotide kinase–phosphatase
por: Das, Ushati, et al.
Publicado: (2013)

Mycobacterium smegmatis DinB2 misincorporates deoxyribonucleotides and ribonucleotides during templated synthesis and lesion bypass
por: Ordonez, Heather, et al.
Publicado: (2014)

Identification of Novel Inhibitors of Escherichia coli DNA Ligase (LigA)
por: Alomari, Arqam, et al.
Publicado: (2021)

The sequential 2′,3′-cyclic phosphodiesterase and 3′-phosphate/5′-OH ligation steps of the RtcB RNA splicing pathway are GTP-dependent
por: Chakravarty, Anupam K., et al.
Publicado: (2012)

Mutational analysis of the 5′-OH oligonucleotide phosphate acceptor site of T4 polynucleotide kinase
por: Wang, Li Kai, et al.
Publicado: (2010)

Low-fidelity DNA synthesis by human DNA polymerase theta
por: Arana, Mercedes E., et al.
Publicado: (2008)

Direct assessment of transcription fidelity by high-resolution RNA sequencing
por: Imashimizu, Masahiko, et al.
Publicado: (2013)

Cannot write session to /tmp/vufind_sessions/sess_kl7j9497qfhfukqruno198630u