Pathways Knowlegdes

Necessitatibus eius consequatur ex aliquid fuga eum quidem sint consectetur velit

Pathway DOIs Note
Base Excision Repair

Accession ID: Reactome:R-BTA-73884
  • 10.1093/nar/30.8.1817
  • 10.1126/science.286.5446.1897
 Sokhansanj BA, Rodrigue GR, Fitch JP, Wilson DM. A quantitative model of human DNA base excision repair. I. Mechanistic insights. Nucleic Acids Res. 2002 Apr 15;30(8):1817–25. PMID: 11937636; PMCID: PMC113225.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.
POLB-Dependent Long Patch Base Excision Repair

Accession ID: Reactome:R-BTA-110362
  • 10.1016/j.dnarep.2003.09.012
  • 10.1016/s0079-6603(01)68097-8
  • 10.1074/jbc.273.32.20540
  • 10.1074/jbc.c100292200
  • 10.1074/jbc.m102125200
  • 10.1074/jbc.m207207200
  • 10.1074/jbc.m412922200
  • 10.1093/emboj/16.11.3341
 Liu Y, Beard WA, Shock DD, Prasad R, Hou EW, Wilson SH. DNA polymerase beta and flap endonuclease 1 enzymatic specificities sustain DNA synthesis for long patch base excision repair. J Biol Chem. 2005 Feb 04;280(5):3665–74. doi: 10.1074/jbc.m412922200. PMID: 15561706.; Cistulli C, Lavrik OI, Prasad R, Hou E, Wilson SH. AP endonuclease and poly(ADP-ribose) polymerase-1 interact with the same base excision repair intermediate. DNA Repair (Amst). 2004 Jun 03;3(6):581–91. doi: 10.1016/j.dnarep.2003.09.012. PMID: 15135726.; Ranalli TA, Tom S, Bambara RA. AP Endonuclease 1 Coordinates Flap Endonuclease 1 and DNA Ligase I Activity in Long Patch Base Excision Repair. Journal of Biological Chemistry. 2002 Nov;277(44):41715–24. doi: 10.1074/jbc.m207207200.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Lavrik OI, Prasad R, Sobol RW, Horton JK, Ackerman EJ, Wilson SH. Photoaffinity labeling of mouse fibroblast enzymes by a base excision repair intermediate. Evidence for the role of poly(ADP-ribose) polymerase-1 in DNA repair. J Biol Chem. 2001 Jul 06;276(27):25541–8. doi: 10.1074/jbc.m102125200. PMID: 11340072.; Tomkinson AE, Chen L, Dong Z, Leppard JB, Levin DS, Mackey ZB, Motycka TA. Completion of base excision repair by mammalian DNA ligases. Prog Nucleic Acid Res Mol Biol. 2001;68():151–64. doi: 10.1016/s0079-6603(01)68097-8. PMID: 11554294.; Dimitriadis EK, Prasad R, Vaske MK, Chen L, Tomkinson AE, Lewis MS, Wilson SH. Thermodynamics of human DNA ligase I trimerization and association with DNA polymerase beta. J Biol Chem. 1998 Aug 07;273(32):20540–50. doi: 10.1074/jbc.273.32.20540. PMID: 9685411.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.
Resolution of Abasic Sites (AP sites)

Accession ID: Reactome:R-DRE-73933
  • 10.1002/j.1460-2075.1996.tb01056.x
  • 10.1016/j.dnarep.2006.07.003
  • 10.1016/j.molcel.2004.06.003
  • 10.1021/bi011117i
  • 10.1042/bj20050211
  • 10.1073/pnas.0407686101
  • 10.1073/pnas.94.14.7166
  • 10.1074/jbc.270.27.16002
  • 10.1074/jbc.273.46.30352
  • 10.1074/jbc.c100292200
  • 10.1074/jbc.m109.000505
  • 10.1093/emboj/16.11.3341
  • 10.1093/nar/gkm075
 Balakrishnan L, Brandt PD, Lindsey-Boltz LA, Sancar A, Bambara RA. Long Patch Base Excision Repair Proceeds via Coordinated Stimulation of the Multienzyme DNA Repair Complex. Journal of Biological Chemistry. 2009 May;284(22):15158–72. doi: 10.1074/jbc.m109.000505.; Guan X, Bai H, Shi G, Theriot CA, Hazra TK, Mitra S, Lu AL. The human checkpoint sensor Rad9-Rad1-Hus1 interacts with and stimulates NEIL1 glycosylase. Nucleic Acids Res. 2007;35(8):2463–72. PMID: 17395641; PMCID: PMC1885643.; Das A, Wiederhold L, Leppard JB, Kedar P, Prasad R, Wang H, Boldogh I, Karimi-Busheri F, Weinfeld M, Tomkinson AE, Wilson SH, Mitra S, Hazra TK. NEIL2-initiated, APE-independent repair of oxidized bases in DNA: Evidence for a repair complex in human cells. DNA Repair (Amst). 2006 Dec 09;5(12):1439–48. PMID: 16982218; PMCID: PMC2805168.; Smirnova E, Toueille M, Markkanen E, Hübscher U. The human checkpoint sensor and alternative DNA clamp Rad9-Rad1-Hus1 modulates the activity of DNA ligase I, a component of the long-patch base excision repair machinery. Biochem J. 2005 Jul 01;389(Pt 1):13–7. PMID: 15871698; PMCID: PMC1184534.; Wang W, Brandt P, Rossi ML, Lindsey-Boltz L, Podust V, Fanning E, Sancar A, Bambara RA. The human Rad9–Rad1–Hus1 checkpoint complex stimulates flap endonuclease 1. Proc. Natl. Acad. Sci. U.S.A. 2004 Nov 19;101(48):16762–7. doi: 10.1073/pnas.0407686101.; Wiederhold L, Leppard JB, Kedar P, Karimi-Busheri F, Rasouli-Nia A, Weinfeld M, Tomkinson AE, Izumi T, Prasad R, Wilson SH, Mitra S, Hazra TK. AP endonuclease-independent DNA base excision repair in human cells. Mol Cell. 2004 Jul 23;15(2):209–20. doi: 10.1016/j.molcel.2004.06.003. PMID: 15260972.; Dianova II, Bohr VA, Dianov GL. Interaction of human AP endonuclease 1 with flap endonuclease 1 and proliferating cell nuclear antigen involved in long-patch base excision repair. Biochemistry. 2001 Oct 23;40(42):12639–44. doi: 10.1021/bi011117i. PMID: 11601988.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Masuda Y, Bennett RAO, Demple B. Dynamics of the Interaction of Human Apurinic Endonuclease (Ape1) with Its Substrate and Product. Journal of Biological Chemistry. 1998 Nov;273(46):30352–9. doi: 10.1074/jbc.273.46.30352.; Bennett RAO, Wilson DM, Wong D, Demple B. Interaction of human apurinic endonuclease and DNA polymerase ß in the base excision repair pathway. Proc. Natl. Acad. Sci. U.S.A. 1997 Jul 08;94(14):7166–9. doi: 10.1073/pnas.94.14.7166.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.; Kubota Y, Nash RA, Klungland A, Schär P, Barnes DE, Lindahl T. Reconstitution of DNA base excision-repair with purified human proteins: interaction between DNA polymerase beta and the XRCC1 protein. The EMBO Journal. 1996 Dec;15(23):6662–70. doi: 10.1002/j.1460-2075.1996.tb01056.x.; Wilson DM, Takeshita M, Grollman AP, Demple B. Incision Activity of Human Apurinic Endonuclease (Ape) at Abasic Site Analogs in DNA. Journal of Biological Chemistry. 1995 Jul;270(27):16002–7. doi: 10.1074/jbc.270.27.16002.
DNA Repair

Accession ID: Reactome:R-DDI-73894
  • 10.1038/nrc3399
  • 10.1126/science.286.5446.1897
 Curtin NJ. DNA repair dysregulation from cancer driver to therapeutic target. Nat Rev Cancer. 2012 Dec;12(12):801–17. doi: 10.1038/nrc3399. PMID: 23175119.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.
Resolution of AP sites via the multiple-nucleotide patch replacement pathway

Accession ID: Reactome:R-DDI-110373
  • 10.1021/bi011117i
  • 10.1021/bi9908890
  • 10.1074/jbc.274.47.33703
  • 10.1074/jbc.c100292200
  • 10.1093/emboj/16.11.3341
  • 10.1126/science.286.5446.1897
 Dianova II, Bohr VA, Dianov GL. Interaction of human AP endonuclease 1 with flap endonuclease 1 and proliferating cell nuclear antigen involved in long-patch base excision repair. Biochemistry. 2001 Oct 23;40(42):12639–44. doi: 10.1021/bi011117i. PMID: 11601988.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.; Matsumoto Y, Kim K, Hurwitz J, Gary R, Levin DS, Tomkinson AE, Park MS. Reconstitution of Proliferating Cell Nuclear Antigen-dependent Repair of Apurinic/Apyrimidinic Sites with Purified Human Proteins. Journal of Biological Chemistry. 1999 Nov;274(47):33703–8. doi: 10.1074/jbc.274.47.33703.; Dianov GL, Jensen BR, Kenny MK, Bohr VA. Replication protein A stimulates proliferating cell nuclear antigen-dependent repair of abasic sites in DNA by human cell extracts. Biochemistry. 1999 Aug 24;38(34):11021–5. doi: 10.1021/bi9908890. PMID: 10460157.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.
POLB-Dependent Long Patch Base Excision Repair

Accession ID: Reactome:R-GGA-110362
  • 10.1016/j.dnarep.2003.09.012
  • 10.1016/s0079-6603(01)68097-8
  • 10.1074/jbc.273.32.20540
  • 10.1074/jbc.c100292200
  • 10.1074/jbc.m102125200
  • 10.1074/jbc.m207207200
  • 10.1074/jbc.m412922200
  • 10.1093/emboj/16.11.3341
 Liu Y, Beard WA, Shock DD, Prasad R, Hou EW, Wilson SH. DNA polymerase beta and flap endonuclease 1 enzymatic specificities sustain DNA synthesis for long patch base excision repair. J Biol Chem. 2005 Feb 04;280(5):3665–74. doi: 10.1074/jbc.m412922200. PMID: 15561706.; Cistulli C, Lavrik OI, Prasad R, Hou E, Wilson SH. AP endonuclease and poly(ADP-ribose) polymerase-1 interact with the same base excision repair intermediate. DNA Repair (Amst). 2004 Jun 03;3(6):581–91. doi: 10.1016/j.dnarep.2003.09.012. PMID: 15135726.; Ranalli TA, Tom S, Bambara RA. AP Endonuclease 1 Coordinates Flap Endonuclease 1 and DNA Ligase I Activity in Long Patch Base Excision Repair. Journal of Biological Chemistry. 2002 Nov;277(44):41715–24. doi: 10.1074/jbc.m207207200.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Lavrik OI, Prasad R, Sobol RW, Horton JK, Ackerman EJ, Wilson SH. Photoaffinity labeling of mouse fibroblast enzymes by a base excision repair intermediate. Evidence for the role of poly(ADP-ribose) polymerase-1 in DNA repair. J Biol Chem. 2001 Jul 06;276(27):25541–8. doi: 10.1074/jbc.m102125200. PMID: 11340072.; Tomkinson AE, Chen L, Dong Z, Leppard JB, Levin DS, Mackey ZB, Motycka TA. Completion of base excision repair by mammalian DNA ligases. Prog Nucleic Acid Res Mol Biol. 2001;68():151–64. doi: 10.1016/s0079-6603(01)68097-8. PMID: 11554294.; Dimitriadis EK, Prasad R, Vaske MK, Chen L, Tomkinson AE, Lewis MS, Wilson SH. Thermodynamics of human DNA ligase I trimerization and association with DNA polymerase beta. J Biol Chem. 1998 Aug 07;273(32):20540–50. doi: 10.1074/jbc.273.32.20540. PMID: 9685411.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.
Resolution of AP sites via the multiple-nucleotide patch replacement pathway

Accession ID: Reactome:R-HSA-110373
  • 10.1021/bi011117i
  • 10.1021/bi9908890
  • 10.1074/jbc.274.47.33703
  • 10.1074/jbc.c100292200
  • 10.1093/emboj/16.11.3341
  • 10.1126/science.286.5446.1897
 Dianova II, Bohr VA, Dianov GL. Interaction of human AP endonuclease 1 with flap endonuclease 1 and proliferating cell nuclear antigen involved in long-patch base excision repair. Biochemistry. 2001 Oct 23;40(42):12639–44. doi: 10.1021/bi011117i. PMID: 11601988.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.; Matsumoto Y, Kim K, Hurwitz J, Gary R, Levin DS, Tomkinson AE, Park MS. Reconstitution of Proliferating Cell Nuclear Antigen-dependent Repair of Apurinic/Apyrimidinic Sites with Purified Human Proteins. Journal of Biological Chemistry. 1999 Nov;274(47):33703–8. doi: 10.1074/jbc.274.47.33703.; Dianov GL, Jensen BR, Kenny MK, Bohr VA. Replication protein A stimulates proliferating cell nuclear antigen-dependent repair of abasic sites in DNA by human cell extracts. Biochemistry. 1999 Aug 24;38(34):11021–5. doi: 10.1021/bi9908890. PMID: 10460157.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.
Resolution of Abasic Sites (AP sites)

Accession ID: Reactome:R-MMU-73933
  • 10.1002/j.1460-2075.1996.tb01056.x
  • 10.1016/j.dnarep.2006.07.003
  • 10.1016/j.molcel.2004.06.003
  • 10.1021/bi011117i
  • 10.1042/bj20050211
  • 10.1073/pnas.0407686101
  • 10.1073/pnas.94.14.7166
  • 10.1074/jbc.270.27.16002
  • 10.1074/jbc.273.46.30352
  • 10.1074/jbc.c100292200
  • 10.1074/jbc.m109.000505
  • 10.1093/emboj/16.11.3341
  • 10.1093/nar/gkm075
 Balakrishnan L, Brandt PD, Lindsey-Boltz LA, Sancar A, Bambara RA. Long Patch Base Excision Repair Proceeds via Coordinated Stimulation of the Multienzyme DNA Repair Complex. Journal of Biological Chemistry. 2009 May;284(22):15158–72. doi: 10.1074/jbc.m109.000505.; Guan X, Bai H, Shi G, Theriot CA, Hazra TK, Mitra S, Lu AL. The human checkpoint sensor Rad9-Rad1-Hus1 interacts with and stimulates NEIL1 glycosylase. Nucleic Acids Res. 2007;35(8):2463–72. PMID: 17395641; PMCID: PMC1885643.; Das A, Wiederhold L, Leppard JB, Kedar P, Prasad R, Wang H, Boldogh I, Karimi-Busheri F, Weinfeld M, Tomkinson AE, Wilson SH, Mitra S, Hazra TK. NEIL2-initiated, APE-independent repair of oxidized bases in DNA: Evidence for a repair complex in human cells. DNA Repair (Amst). 2006 Dec 09;5(12):1439–48. PMID: 16982218; PMCID: PMC2805168.; Smirnova E, Toueille M, Markkanen E, Hübscher U. The human checkpoint sensor and alternative DNA clamp Rad9-Rad1-Hus1 modulates the activity of DNA ligase I, a component of the long-patch base excision repair machinery. Biochem J. 2005 Jul 01;389(Pt 1):13–7. PMID: 15871698; PMCID: PMC1184534.; Wang W, Brandt P, Rossi ML, Lindsey-Boltz L, Podust V, Fanning E, Sancar A, Bambara RA. The human Rad9–Rad1–Hus1 checkpoint complex stimulates flap endonuclease 1. Proc. Natl. Acad. Sci. U.S.A. 2004 Nov 19;101(48):16762–7. doi: 10.1073/pnas.0407686101.; Wiederhold L, Leppard JB, Kedar P, Karimi-Busheri F, Rasouli-Nia A, Weinfeld M, Tomkinson AE, Izumi T, Prasad R, Wilson SH, Mitra S, Hazra TK. AP endonuclease-independent DNA base excision repair in human cells. Mol Cell. 2004 Jul 23;15(2):209–20. doi: 10.1016/j.molcel.2004.06.003. PMID: 15260972.; Dianova II, Bohr VA, Dianov GL. Interaction of human AP endonuclease 1 with flap endonuclease 1 and proliferating cell nuclear antigen involved in long-patch base excision repair. Biochemistry. 2001 Oct 23;40(42):12639–44. doi: 10.1021/bi011117i. PMID: 11601988.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Masuda Y, Bennett RAO, Demple B. Dynamics of the Interaction of Human Apurinic Endonuclease (Ape1) with Its Substrate and Product. Journal of Biological Chemistry. 1998 Nov;273(46):30352–9. doi: 10.1074/jbc.273.46.30352.; Bennett RAO, Wilson DM, Wong D, Demple B. Interaction of human apurinic endonuclease and DNA polymerase ß in the base excision repair pathway. Proc. Natl. Acad. Sci. U.S.A. 1997 Jul 08;94(14):7166–9. doi: 10.1073/pnas.94.14.7166.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.; Kubota Y, Nash RA, Klungland A, Schär P, Barnes DE, Lindahl T. Reconstitution of DNA base excision-repair with purified human proteins: interaction between DNA polymerase beta and the XRCC1 protein. The EMBO Journal. 1996 Dec;15(23):6662–70. doi: 10.1002/j.1460-2075.1996.tb01056.x.; Wilson DM, Takeshita M, Grollman AP, Demple B. Incision Activity of Human Apurinic Endonuclease (Ape) at Abasic Site Analogs in DNA. Journal of Biological Chemistry. 1995 Jul;270(27):16002–7. doi: 10.1074/jbc.270.27.16002.
DNA Repair

Accession ID: Reactome:R-RNO-73894
  • 10.1038/nrc3399
  • 10.1126/science.286.5446.1897
 Curtin NJ. DNA repair dysregulation from cancer driver to therapeutic target. Nat Rev Cancer. 2012 Dec;12(12):801–17. doi: 10.1038/nrc3399. PMID: 23175119.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.
Resolution of AP sites via the multiple-nucleotide patch replacement pathway

Accession ID: Reactome:R-RNO-110373
  • 10.1021/bi011117i
  • 10.1021/bi9908890
  • 10.1074/jbc.274.47.33703
  • 10.1074/jbc.c100292200
  • 10.1093/emboj/16.11.3341
  • 10.1126/science.286.5446.1897
 Dianova II, Bohr VA, Dianov GL. Interaction of human AP endonuclease 1 with flap endonuclease 1 and proliferating cell nuclear antigen involved in long-patch base excision repair. Biochemistry. 2001 Oct 23;40(42):12639–44. doi: 10.1021/bi011117i. PMID: 11601988.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.; Matsumoto Y, Kim K, Hurwitz J, Gary R, Levin DS, Tomkinson AE, Park MS. Reconstitution of Proliferating Cell Nuclear Antigen-dependent Repair of Apurinic/Apyrimidinic Sites with Purified Human Proteins. Journal of Biological Chemistry. 1999 Nov;274(47):33703–8. doi: 10.1074/jbc.274.47.33703.; Dianov GL, Jensen BR, Kenny MK, Bohr VA. Replication protein A stimulates proliferating cell nuclear antigen-dependent repair of abasic sites in DNA by human cell extracts. Biochemistry. 1999 Aug 24;38(34):11021–5. doi: 10.1021/bi9908890. PMID: 10460157.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.
Base Excision Repair

Accession ID: Reactome:R-SSC-73884
  • 10.1093/nar/30.8.1817
  • 10.1126/science.286.5446.1897
 Sokhansanj BA, Rodrigue GR, Fitch JP, Wilson DM. A quantitative model of human DNA base excision repair. I. Mechanistic insights. Nucleic Acids Res. 2002 Apr 15;30(8):1817–25. PMID: 11937636; PMCID: PMC113225.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.
POLB-Dependent Long Patch Base Excision Repair

Accession ID: Reactome:R-SSC-110362
  • 10.1016/j.dnarep.2003.09.012
  • 10.1016/s0079-6603(01)68097-8
  • 10.1074/jbc.273.32.20540
  • 10.1074/jbc.c100292200
  • 10.1074/jbc.m102125200
  • 10.1074/jbc.m207207200
  • 10.1074/jbc.m412922200
  • 10.1093/emboj/16.11.3341
 Liu Y, Beard WA, Shock DD, Prasad R, Hou EW, Wilson SH. DNA polymerase beta and flap endonuclease 1 enzymatic specificities sustain DNA synthesis for long patch base excision repair. J Biol Chem. 2005 Feb 04;280(5):3665–74. doi: 10.1074/jbc.m412922200. PMID: 15561706.; Cistulli C, Lavrik OI, Prasad R, Hou E, Wilson SH. AP endonuclease and poly(ADP-ribose) polymerase-1 interact with the same base excision repair intermediate. DNA Repair (Amst). 2004 Jun 03;3(6):581–91. doi: 10.1016/j.dnarep.2003.09.012. PMID: 15135726.; Ranalli TA, Tom S, Bambara RA. AP Endonuclease 1 Coordinates Flap Endonuclease 1 and DNA Ligase I Activity in Long Patch Base Excision Repair. Journal of Biological Chemistry. 2002 Nov;277(44):41715–24. doi: 10.1074/jbc.m207207200.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Lavrik OI, Prasad R, Sobol RW, Horton JK, Ackerman EJ, Wilson SH. Photoaffinity labeling of mouse fibroblast enzymes by a base excision repair intermediate. Evidence for the role of poly(ADP-ribose) polymerase-1 in DNA repair. J Biol Chem. 2001 Jul 06;276(27):25541–8. doi: 10.1074/jbc.m102125200. PMID: 11340072.; Tomkinson AE, Chen L, Dong Z, Leppard JB, Levin DS, Mackey ZB, Motycka TA. Completion of base excision repair by mammalian DNA ligases. Prog Nucleic Acid Res Mol Biol. 2001;68():151–64. doi: 10.1016/s0079-6603(01)68097-8. PMID: 11554294.; Dimitriadis EK, Prasad R, Vaske MK, Chen L, Tomkinson AE, Lewis MS, Wilson SH. Thermodynamics of human DNA ligase I trimerization and association with DNA polymerase beta. J Biol Chem. 1998 Aug 07;273(32):20540–50. doi: 10.1074/jbc.273.32.20540. PMID: 9685411.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.
Base Excision Repair

Accession ID: Reactome:R-XTR-73884
  • 10.1093/nar/30.8.1817
  • 10.1126/science.286.5446.1897
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POLB-Dependent Long Patch Base Excision Repair

Accession ID: Reactome:R-XTR-110362
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DNA Repair

Accession ID: Reactome:R-BTA-73894
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Resolution of AP sites via the multiple-nucleotide patch replacement pathway

Accession ID: Reactome:R-BTA-110373
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Resolution of Abasic Sites (AP sites)

Accession ID: Reactome:R-DDI-73933
  • 10.1002/j.1460-2075.1996.tb01056.x
  • 10.1016/j.dnarep.2006.07.003
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  • 10.1074/jbc.m109.000505
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  • 10.1093/nar/gkm075
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Base Excision Repair

Accession ID: Reactome:R-GGA-73884
  • 10.1093/nar/30.8.1817
  • 10.1126/science.286.5446.1897
 Sokhansanj BA, Rodrigue GR, Fitch JP, Wilson DM. A quantitative model of human DNA base excision repair. I. Mechanistic insights. Nucleic Acids Res. 2002 Apr 15;30(8):1817–25. PMID: 11937636; PMCID: PMC113225.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.
Resolution of AP sites via the multiple-nucleotide patch replacement pathway

Accession ID: Reactome:R-GGA-110373
  • 10.1021/bi011117i
  • 10.1021/bi9908890
  • 10.1074/jbc.274.47.33703
  • 10.1074/jbc.c100292200
  • 10.1093/emboj/16.11.3341
  • 10.1126/science.286.5446.1897
 Dianova II, Bohr VA, Dianov GL. Interaction of human AP endonuclease 1 with flap endonuclease 1 and proliferating cell nuclear antigen involved in long-patch base excision repair. Biochemistry. 2001 Oct 23;40(42):12639–44. doi: 10.1021/bi011117i. PMID: 11601988.; Prasad R, Lavrik OI, Kim SJ, Kedar P, Yang XP, Vande Berg BJ, Wilson SH. DNA polymerase beta -mediated long patch base excision repair. Poly(ADP-ribose)polymerase-1 stimulates strand displacement DNA synthesis. J Biol Chem. 2001 Aug 31;276(35):32411–4. doi: 10.1074/jbc.c100292200. PMID: 11440997.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.; Matsumoto Y, Kim K, Hurwitz J, Gary R, Levin DS, Tomkinson AE, Park MS. Reconstitution of Proliferating Cell Nuclear Antigen-dependent Repair of Apurinic/Apyrimidinic Sites with Purified Human Proteins. Journal of Biological Chemistry. 1999 Nov;274(47):33703–8. doi: 10.1074/jbc.274.47.33703.; Dianov GL, Jensen BR, Kenny MK, Bohr VA. Replication protein A stimulates proliferating cell nuclear antigen-dependent repair of abasic sites in DNA by human cell extracts. Biochemistry. 1999 Aug 24;38(34):11021–5. doi: 10.1021/bi9908890. PMID: 10460157.; Klungland A, Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 1997 Jun 02;16(11):3341–8. PMID: 9214649; PMCID: PMC1169950.
Base Excision Repair

Accession ID: Reactome:R-HSA-73884
  • 10.1093/nar/30.8.1817
  • 10.1126/science.286.5446.1897
 Sokhansanj BA, Rodrigue GR, Fitch JP, Wilson DM. A quantitative model of human DNA base excision repair. I. Mechanistic insights. Nucleic Acids Res. 2002 Apr 15;30(8):1817–25. PMID: 11937636; PMCID: PMC113225.; Lindahl T, Wood RD. Quality control by DNA repair. Science. 1999 Dec 03;286(5446):1897–905. doi: 10.1126/science.286.5446.1897. PMID: 10583946.