DNA polymerase lambda
Protein-coding gene in the species Homo sapiens
| POLL | |||||||||||||||||||||||||||||||||||||||||||||||||||
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| Aliases | POLL, BETAN, POLKAPPA, polymerase (DNA) lambda, DNA polymerase lambda | ||||||||||||||||||||||||||||||||||||||||||||||||||
| External IDs | OMIM: 606343; MGI: 1889000; HomoloGene: 40863; GeneCards: POLL; OMA:POLL - orthologs | ||||||||||||||||||||||||||||||||||||||||||||||||||
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DNA polymerase lambda, also known as Pol λ, is an enzyme found in all eukaryotes. In humans, it is encoded by the POLL gene.[5][6]
Function
Pol λ is a member of the X family of DNA polymerases. It is thought to resynthesize missing nucleotides during non-homologous end joining (NHEJ), a pathway of DNA double-strand break (DSB) repair.[7][8] NHEJ is the main pathway in higher eukaryotes for repair of DNA DSBs. Chromosomal DSBs are the most severe type of DNA damage. During NHEJ, duplexes generated by the alignment of broken DNA ends usually contain small gaps that need to be filled in by a DNA polymerase. DNA polymerase lambda can perform this function.[9]
The crystal structure of pol λ shows that, unlike the DNA polymerases that catalyze DNA replication, pol λ makes extensive contacts with the 5' phosphate of the downstream DNA strand. This allows the polymerase to stabilize the two ends of a double-strand break and explains how pol λ is uniquely suited for a role in non-homologous end joining.[10]
In addition to NHEJ, pol λ can also participate in base excision repair (BER), where it provides backup activity in the absence of Pol β.[11][12] BER is the major pathway for repair of small base damages resulting from alkylation, oxidation, depurination/depyrimidination, and deamination of DNA.
Besides its catalytic polymerase domain, pol λ has an 8 kDa domain and a BRCT domain. The 8 kDa domain has lyase activity that can remove a 5' deoxyribosephosphate group from the end of a strand break.[13] The BRCT domain is a phosphopeptide binding domain that is common among DNA repair proteins and is likely involved in coordinating protein-protein interactions.[14] Pol λ is structurally and functionally related to pol μ, another member of the X family that also participates in non-homologous end joining.[15] Like pol μ, pol λ participates in V(D)J recombination, the process by which B-cell and T-cell receptor diversity is generated in the vertebrate immune system. Whereas pol μ is important for heavy-chain rearrangements, pol λ seems to be more important for light-chain rearrangements.[16][17] The yeast Saccharomyces cerevisiae has a single homolog of both pol λ and pol μ called Pol4.[18]
Translesion synthesis is a damage tolerance mechanism in which specialized DNA polymerases substitute for replicative polymerases in copying across DNA damages during replication. DNA polymerase lambda appears to be involved in translesion synthesis of abasic sites and 8-oxodG damages.[9][19]
Interactions
Pol λ has been shown to interact with PCNA.[20]
References
- ^ a b c GRCh38: Ensembl release 89: ENSG00000166169 – Ensembl, May 2017
- ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000025218 – Ensembl, May 2017
- ^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
- ^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
- ^ "Entrez Gene: POLL polymerase (DNA directed), lambda".
- ^ Aoufouchi S, Flatter E, Dahan A, Faili A, Bertocci B, Storck S, Delbos F, Cocea L, Gupta N, Weill JC, Reynaud CA (September 2000). "Two novel human and mouse DNA polymerases of the polX family". Nucleic Acids Res. 28 (18): 3684–93. doi:10.1093/nar/28.18.3684. PMC 110747. PMID 10982892.
- ^ Daley JM, Laan RL, Suresh A, Wilson TE (August 2005). "DNA joint dependence of pol X family polymerase action in nonhomologous end joining". J. Biol. Chem. 280 (32): 29030–7. doi:10.1074/jbc.M505277200. PMID 15964833.
- ^ Lee JW, Blanco L, Zhou T, Garcia-Diaz M, Bebenek K, Kunkel TA, Wang Z, Povirk LF (January 2004). "Implication of DNA polymerase lambda in alignment-based gap filling for nonhomologous DNA end joining in human nuclear extracts". J. Biol. Chem. 279 (1): 805–11. doi:10.1074/jbc.M307913200. hdl:10261/338875. PMID 14561766.
- ^ a b Bebenek K, Pedersen LC, Kunkel TA (2014). "Structure-function studies of DNA polymerase λ". Biochemistry. 53 (17): 2781–92. doi:10.1021/bi4017236. PMC 4018081. PMID 24716527.
- ^ Garcia-Diaz M, Bebenek K, Krahn JM, Blanco L, Kunkel TA, Pedersen LC (February 2004). "A structural solution for the DNA polymerase lambda-dependent repair of DNA gaps with minimal homology". Mol. Cell. 13 (4): 561–72. doi:10.1016/S1097-2765(04)00061-9. PMID 14992725.
- ^ Tano K, Nakamura J, Asagoshi K, Arakawa H, Sonoda E, Braithwaite EK, Prasad R, Buerstedde JM, Takeda S, Watanabe M, Wilson SH (June 2007). "Interplay between DNA polymerases beta and lambda in repair of oxidation DNA damage in chicken DT40 cells". DNA Repair (Amst.). 6 (6): 869–75. doi:10.1016/j.dnarep.2007.01.011. PMC 2080795. PMID 17363341.
- ^ Braithwaite EK, Prasad R, Shock DD, Hou EW, Beard WA, Wilson SH (May 2005). "DNA polymerase lambda mediates a back-up base excision repair activity in extracts of mouse embryonic fibroblasts". J. Biol. Chem. 280 (18): 18469–75. doi:10.1074/jbc.M411864200. PMID 15749700.
- ^ García-Díaz M, Bebenek K, Kunkel TA, Blanco L (September 2001). "Identification of an intrinsic 5'-deoxyribose-5-phosphate lyase activity in human DNA polymerase lambda: a possible role in base excision repair". J. Biol. Chem. 276 (37): 34659–63. doi:10.1074/jbc.M106336200. hdl:10261/338865. PMID 11457865.
- ^ Yu X, Chini CC, He M, Mer G, Chen J (October 2003). "The BRCT domain is a phospho-protein binding domain". Science. 302 (5645): 639–42. Bibcode:2003Sci...302..639Y. doi:10.1126/science.1088753. PMID 14576433. S2CID 29407635.
- ^ Nick McElhinny SA, Ramsden DA (August 2004). "Sibling rivalry: competition between Pol X family members in V(D)J recombination and general double strand break repair". Immunol. Rev. 200: 156–64. doi:10.1111/j.0105-2896.2004.00160.x. PMID 15242403. S2CID 36516952.
- ^ Bertocci B, De Smet A, Berek C, Weill JC, Reynaud CA (August 2003). "Immunoglobulin kappa light chain gene rearrangement is impaired in mice deficient for DNA polymerase mu". Immunity. 19 (2): 203–11. doi:10.1016/S1074-7613(03)00203-6. PMID 12932354.
- ^ Bertocci B, De Smet A, Weill JC, Reynaud CA (July 2006). "Nonoverlapping functions of DNA polymerases mu, lambda, and terminal deoxynucleotidyltransferase during immunoglobulin V(D)J recombination in vivo". Immunity. 25 (1): 31–41. doi:10.1016/j.immuni.2006.04.013. PMID 16860755.
- ^ Lieber MR (July 2006). "The polymerases for V(D)J recombination". Immunity. 25 (1): 7–9. doi:10.1016/j.immuni.2006.07.007. PMID 16860749.
- ^ Burak MJ, Guja KE, Hambardjieva E, Derkunt B, Garcia-Diaz M (2016). "A fidelity mechanism in DNA polymerase lambda promotes error-free bypass of 8-oxo-dG". EMBO J. 35 (18): 2045–59. doi:10.15252/embj.201694332. PMC 5282837. PMID 27481934.
- ^ Maga G, Villani G, Ramadan K, Shevelev I, Tanguy Le Gac N, Blanco L, Blanca G, Spadari S, Hübscher U (December 2002). "Human DNA polymerase lambda functionally and physically interacts with proliferating cell nuclear antigen in normal and translesion DNA synthesis". J. Biol. Chem. 277 (50): 48434–40. doi:10.1074/jbc.M206889200. PMID 12368291.
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PDB gallery
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1nzp: Solution Structure of the Lyase Domain of Human DNA Polymerase Lambda -
1rzt: Crystal structure of DNA polymerase lambda complexed with a two nucleotide gap DNA molecule -
1xsl: Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap -
1xsn: Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap and ddTTP -
1xsp: Crystal Structure of human DNA polymerase lambda in complex with nicked DNA and pyrophosphate -
2bcq: DNA polymerase lambda in complex with a DNA duplex containing an unpaired Dtmp -
2bcr: DNA polymerase lambda in complex with a DNA duplex containing an unpaired Damp -
2bcs: DNA polymerase lambda in complex with a DNA duplex containing an unpaired Dcmp -
2bcu: DNA polymerase lambda in complex with a DNA duplex containing an unpaired Damp and a T:T mismatch -
2bcv: DNA polymerase lambda in complex with Dttp and a DNA duplex containing an unpaired Dtmp -
2gws: Crystal Structure of human DNA Polymerase lambda with a G/G mismatch in the primer terminus -
2pfn: Na in the active site of DNA Polymerase lambda -
2pfo: DNA Polymerase lambda in complex with DNA and dUPNPP -
2pfp: DNA Polymerase lambda in complex with DNA and dCTP -
2pfq: Manganese promotes catalysis in a DNA polymerase lambda-DNA crystal
