DNA ligase I, the replicative DNA ligase. 2012

Timothy R L Howes, and Alan E Tomkinson
Biomedical Sciences Graduate Program, University of New Mexico, Cancer Research Facility MSC08 4640, 1 University of New Mexico, Albuquerque, NM, 87131-0001, USA, howes.timothy@gmail.com.

Multiple DNA ligation events are required to join the Okazaki fragments generated during lagging strand DNA synthesis. In eukaryotes, this is primarily carried out by members of the DNA ligase I family. The C-terminal catalytic region of these enzymes is composed of three domains: a DNA binding domain, an adenylation domain and an OB-fold domain. In the absence of DNA, these domains adopt an extended structure but transition into a compact ring structure when they engage a DNA nick, with each of the domains contacting the DNA. The non-catalytic N-terminal region of eukaryotic DNA ligase I is responsible for the specific participation of these enzymes in DNA replication. This proline-rich unstructured region contains the nuclear localization signal and a PCNA interaction motif that is critical for localization to replication foci and efficient joining of Okazaki fragments. DNA ligase I initially engages the PCNA trimer via this interaction motif which is located at the extreme N-terminus of this flexible region. It is likely that this facilitates an additional interaction between the DNA binding domain and the PCNA ring. The similar size and shape of the rings formed by the PCNA trimer and the DNA ligase I catalytic region when it engages a DNA nick suggest that these proteins interact to form a double-ring structure during the joining of Okazaki fragments. DNA ligase I also interacts with replication factor C, the factor that loads the PCNA trimeric ring onto DNA. This interaction, which is regulated by phosphorylation of the non-catalytic N-terminus of DNA ligase I, also appears to be critical for DNA replication.

UI MeSH Term Description Entries
D011088 DNA Ligases Poly(deoxyribonucleotide):poly(deoxyribonucleotide)ligases. Enzymes that catalyze the joining of preformed deoxyribonucleotides in phosphodiester linkage during genetic processes during repair of a single-stranded break in duplex DNA. The class includes both EC 6.5.1.1 (ATP) and EC 6.5.1.2 (NAD). DNA Joinases,DNA Ligase,Polydeoxyribonucleotide Ligases,Polydeoxyribonucleotide Synthetases,T4 DNA Ligase,DNA Ligase, T4,Joinases, DNA,Ligase, DNA,Ligase, T4 DNA,Ligases, DNA,Ligases, Polydeoxyribonucleotide,Synthetases, Polydeoxyribonucleotide
D004247 DNA A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine). DNA, Double-Stranded,Deoxyribonucleic Acid,ds-DNA,DNA, Double Stranded,Double-Stranded DNA,ds DNA
D004261 DNA Replication The process by which a DNA molecule is duplicated. Autonomous Replication,Replication, Autonomous,Autonomous Replications,DNA Replications,Replication, DNA,Replications, Autonomous,Replications, DNA
D006801 Humans Members of the species Homo sapiens. Homo sapiens,Man (Taxonomy),Human,Man, Modern,Modern Man
D000072481 DNA Ligase ATP ATP-dependent cellular enzyme which catalyzes DNA replication, repair and recombination through formation of internucleotide ester bonds between phosphate and deoxyribose moieties. Vertebrate cells encode three well-characterized DNA ligases, DNA ligase I, III and IV, all of which are related in structure and sequence. DNA ligases either require ATP or NAD. However, archaebacterial, viral, and some eubacterial DNA ligases are ATP-dependent. ATP-Dependent DNA Ligase,DNA Ligase I,DNA Ligase II,DNA Ligase III,DNA Ligase IIIalpha,DNA Ligase IV,DNA Ligases, ATP-Dependent,LIGIIIalpha Protein,Polydeoxyribonucleotide Synthase ATP,ATP Dependent DNA Ligase,ATP, DNA Ligase,ATP, Polydeoxyribonucleotide Synthase,ATP-Dependent DNA Ligases,DNA Ligase, ATP-Dependent,DNA Ligases, ATP Dependent,IIIalpha, DNA Ligase,Ligase ATP, DNA,Ligase I, DNA,Ligase II, DNA,Ligase III, DNA,Ligase IIIalpha, DNA,Ligase IV, DNA,Ligase, ATP-Dependent DNA,Ligases, ATP-Dependent DNA,Synthase ATP, Polydeoxyribonucleotide
D000818 Animals Unicellular or multicellular, heterotrophic organisms, that have sensation and the power of voluntary movement. Under the older five kingdom paradigm, Animalia was one of the kingdoms. Under the modern three domain model, Animalia represents one of the many groups in the domain EUKARYOTA. Animal,Metazoa,Animalia
D017434 Protein Structure, Tertiary The level of protein structure in which combinations of secondary protein structures (ALPHA HELICES; BETA SHEETS; loop regions, and AMINO ACID MOTIFS) pack together to form folded shapes. Disulfide bridges between cysteines in two different parts of the polypeptide chain along with other interactions between the chains play a role in the formation and stabilization of tertiary structure. Tertiary Protein Structure,Protein Structures, Tertiary,Tertiary Protein Structures
D051818 Replication Protein C A DNA-binding protein and AAA ATPase that consists of 5 polypeptides and plays an essential role in DNA REPLICATION in eukaryotes. It binds DNA PRIMER-template junctions and recruits PROLIFERATING CELL NUCLEAR ANTIGEN and DNA POLYMERASES to the site of DNA synthesis. Replication Factor C,Activator 1 Protein,Activator 1 Protein, 145 kDa Subunit,Activator 1 Protein, 36 kDa Subunit,Activator 1 Protein, 37 kDa Subunit,Activator 1 Protein, 38 kDa Subunit,Activator 1 Protein, 40 kDa Subunit,Activator 1 p40,Replication Factor C, Subunit 1,Replication Factor C, Subunit 2,Replication Factor C, Subunit 3,Replication Factor C, Subunit 4,Replication Factor C, Subunit 5,Replication Protein C, Subunit 1,Replication Protein C, Subunit 2,Replication Protein C, Subunit 3,Replication Protein C, Subunit 4,Replication Protein C, Subunit 5
D053904 DNA Breaks, Single-Stranded Interruptions in one of the strands of the sugar-phosphate backbone of double-stranded DNA. Single-Stranded DNA Breaks,DNA Nicks,Single-Strand DNA Breaks,Single-Stranded DNA Break,Break, Single-Strand DNA,Break, Single-Stranded DNA,Breaks, Single-Strand DNA,Breaks, Single-Stranded DNA,DNA Break, Single-Strand,DNA Break, Single-Stranded,DNA Breaks, Single Stranded,DNA Breaks, Single-Strand,DNA Nick,Nick, DNA,Nicks, DNA,Single Strand DNA Breaks,Single Stranded DNA Break,Single Stranded DNA Breaks,Single-Strand DNA Break
D018809 Proliferating Cell Nuclear Antigen Nuclear antigen with a role in DNA synthesis, DNA repair, and cell cycle progression. PCNA is required for the coordinated synthesis of both leading and lagging strands at the replication fork during DNA replication. PCNA expression correlates with the proliferation activity of several malignant and non-malignant cell types. Antigen, Proliferating Cell Nuclear,PCNA

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