{
	"name":"phn03400",
	"children":[
	{
		"name":"Eukaryotic type",
		"children":[
		{
			"name":"SSBR (single strand breaks repair)",
			"children":[
			{
				"name":"Direct repair",
				"children":[
				{
					"name":"PAEH1_09900 methylated-DNA--protein-cysteine methyltransferase\tK00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]"
				}
				]
			},
			{
				"name":"BER (base exicision repair)",
				"children":[
				{
					"name":"DNA glycosylases",
					"children":[
					{
						"name":"PAEH1_09480 uracil-DNA glycosylase\tK03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]"
					},
					{
						"name":"PAEH1_06850 A\/G-specific adenine glycosylase\tK03575 mutY; A\/G-specific adenine glycosylase [EC:3.2.2.31]"
					},
					{
						"name":"PAEH1_05195 endonuclease III\tK10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]"
					}
					]
				},
				{
					"name":"AP endonucleases"
				},
				{
					"name":"Long Patch-BER factors",
					"children":[
					{
						"name":"DNA polymerase delta complex"
					},
					{
						"name":"DNA polymerase epsilon complex"
					}
					]
				},
				{
					"name":"Short Patch-BER factors"
				},
				{
					"name":"Other BER factors"
				}
				]
			},
			{
				"name":"NER (nucleotide excision repair)",
				"children":[
				{
					"name":"GGR (global genome repair) factors",
					"children":[
					{
						"name":"XPC-HR23B-CETN2 complex"
					},
					{
						"name":"Cul4-DDB2 complex"
					},
					{
						"name":"NER4 complex"
					}
					]
				},
				{
					"name":"TCR (transcription coupled repair) factors",
					"children":[
					{
						"name":"DNA-directed RNA polymerase II complex"
					},
					{
						"name":"Cul4-CSA complex"
					},
					{
						"name":"Other TCR factor"
					}
					]
				},
				{
					"name":"TFIIH complex"
				},
				{
					"name":"RPA (replication factor A)"
				},
				{
					"name":"Other NER factors"
				}
				]
			},
			{
				"name":"MMR (mismatch excision repair)",
				"children":[
				{
					"name":"Mismatch and loop recognition factors"
				},
				{
					"name":"MutL homologs"
				},
				{
					"name":"DNA polymerase delta complex"
				},
				{
					"name":"RPA (replication factor A)"
				},
				{
					"name":"RFC (replication factor C)"
				},
				{
					"name":"Other MMR factors"
				}
				]
			}
			]
		},
		{
			"name":"DSBR (double strand breaks repair)",
			"children":[
			{
				"name":"HR (homologous recombination)",
				"children":[
				{
					"name":"MRN(MRX) complex"
				},
				{
					"name":"BRCA1-core complex"
				},
				{
					"name":"BRCA1-A complex"
				},
				{
					"name":"BRCA1-B complex"
				},
				{
					"name":"BRCA1-C complex"
				},
				{
					"name":"BRCA complex"
				},
				{
					"name":"RecA family proteins"
				},
				{
					"name":"Rad52 family proteins"
				},
				{
					"name":"Rad54 family proteins"
				},
				{
					"name":"RecQ family DNA helicases"
				},
				{
					"name":"Bloom's syndrome complex (BTR)"
				},
				{
					"name":"RPA (replication factor A)"
				},
				{
					"name":"Protein phosphatase 4"
				},
				{
					"name":"AP-5 complex"
				},
				{
					"name":"SMC5-SMC6 complex"
				},
				{
					"name":"Other HR factors"
				}
				]
			},
			{
				"name":"NHEJ (non-homologous end-joining)",
				"children":[
				{
					"name":"DNA-PK complex"
				},
				{
					"name":"MRX complex"
				},
				{
					"name":"DNA Ligase 4 complex"
				},
				{
					"name":"X-family DNA polymerases"
				},
				{
					"name":"Other NHEJ factors"
				}
				]
			},
			{
				"name":"FA (Fanconi anemia) pathway",
				"children":[
				{
					"name":"FA core complex"
				},
				{
					"name":"FA core complex binding factors"
				},
				{
					"name":"Bloom's syndrome complex (BTR)"
				},
				{
					"name":"FANCD2-I complex"
				},
				{
					"name":"Downstream FA components"
				},
				{
					"name":"Other FA pathway factors"
				}
				]
			},
			{
				"name":"Other DSBR factors",
				"children":[
				{
					"name":"Protein phosphatase 6"
				},
				{
					"name":"Ubiquitin ligases"
				},
				{
					"name":"Others"
				}
				]
			}
			]
		},
		{
			"name":"TLS (translesion DNA synthesis) factors",
			"children":[
			{
				"name":"Y-family DNA polymerases"
			},
			{
				"name":"B-family DNA polymerases"
			},
			{
				"name":"A-family DNA polymerase"
			},
			{
				"name":"Rad6 epistasis group"
			},
			{
				"name":"Other TLS factors"
			}
			]
		},
		{
			"name":"Check point factors",
			"children":[
			{
				"name":"Rad9-Hus1-Rad1 complex"
			},
			{
				"name":"HRAD17(Rad24)-RFC complex"
			},
			{
				"name":"Rad17-Mec3-Ddc1 complex"
			},
			{
				"name":"FPC (fork protection complex)"
			},
			{
				"name":"Triple T complex"
			},
			{
				"name":"BAG6-UBL4A-GET4 complex"
			},
			{
				"name":"SOSS complex"
			},
			{
				"name":"Other check point factors"
			}
			]
		},
		{
			"name":"Other factors with a suspected DNA repair function",
			"children":[
			{
				"name":"DNA polymerases"
			},
			{
				"name":"Nucleases"
			},
			{
				"name":"Helicases"
			},
			{
				"name":"PSO4 complex"
			},
			{
				"name":"Modulation of nucleotide pools",
				"children":[
				{
					"name":"PAEH1_03345 hypothetical protein\tK03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]"
				},
				{
					"name":"PAEH1_06955 NUDIX hydrolase\tK03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]"
				},
				{
					"name":"PAEH1_03240 deoxyuridine 5'-triphosphate nucleotidohydrolase\tK01520 dut; dUTP diphosphatase [EC:3.6.1.23]"
				}
				]
			}
			]
		}
		]
	},
	{
		"name":"Prokaryotic type",
		"children":[
		{
			"name":"SSBR (single strand breaks repair)",
			"children":[
			{
				"name":"Direct repair",
				"children":[
				{
					"name":"PAEH1_09900 methylated-DNA--protein-cysteine methyltransferase\tK00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]"
				}
				]
			},
			{
				"name":"BER (base exicision repair)",
				"children":[
				{
					"name":"DNA glycosylases",
					"children":[
					{
						"name":"PAEH1_09480 uracil-DNA glycosylase\tK03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]"
					},
					{
						"name":"PAEH1_12030 DNA-3-methyladenine glycosylase\tK01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]"
					},
					{
						"name":"PAEH1_06850 A\/G-specific adenine glycosylase\tK03575 mutY; A\/G-specific adenine glycosylase [EC:3.2.2.31]"
					},
					{
						"name":"PAEH1_10925 DNA-formamidopyrimidine glycosylase\tK10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]"
					},
					{
						"name":"PAEH1_05195 endonuclease III\tK10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]"
					}
					]
				},
				{
					"name":"AP endonucleases",
					"children":[
					{
						"name":"PAEH1_06920 exodeoxyribonuclease III\tK01142 xthA; exodeoxyribonuclease III [EC:3.1.11.2]"
					}
					]
				},
				{
					"name":"RecJ",
					"children":[
					{
						"name":"PAEH1_03050 single-stranded-DNA-specific exonuclease RecJ\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					}
					]
				},
				{
					"name":"DNA ligase",
					"children":[
					{
						"name":"PAEH1_05245 ligA; DNA ligase (NAD(+)) LigA\tK01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]"
					}
					]
				},
				{
					"name":"DNA polymerase I"
				}
				]
			},
			{
				"name":"NER (nucleotide excision repair)",
				"children":[
				{
					"name":"GGR (global genome repair) factors",
					"children":[
					{
						"name":"PAEH1_07785 excinuclease ABC subunit A\tK03701 uvrA; excinuclease ABC subunit A"
					},
					{
						"name":"PAEH1_03110 excinuclease ABC subunit B\tK03702 uvrB; excinuclease ABC subunit B"
					},
					{
						"name":"PAEH1_03200 DNA helicase II\tK03657 uvrD; ATP-dependent DNA helicase UvrD\/PcrA [EC:5.6.2.4]"
					},
					{
						"name":"PAEH1_09620 hypothetical protein\tK03657 uvrD; ATP-dependent DNA helicase UvrD\/PcrA [EC:5.6.2.4]"
					},
					{
						"name":"PAEH1_05245 ligA; DNA ligase (NAD(+)) LigA\tK01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]"
					}
					]
				},
				{
					"name":"TCR (transcription coupled repair) factors",
					"children":[
					{
						"name":"DNA-directed RNA polymerase complex (RNAP)",
						"children":[
						{
							"name":"PAEH1_08145 DNA-directed RNA polymerase subunit beta\tK03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]"
						},
						{
							"name":"PAEH1_08140 DNA-directed RNA polymerase subunit beta'\tK03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]"
						},
						{
							"name":"PAEH1_07895 DNA-directed RNA polymerase subunit alpha\tK03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]"
						},
						{
							"name":"PAEH1_02250 DNA-directed RNA polymerase subunit omega\tK03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]"
						}
						]
					},
					{
						"name":"TRCF (transcription-repair coupling factor)"
					}
					]
				}
				]
			},
			{
				"name":"MMR (mismatch excision repair)",
				"children":[
				{
					"name":"Mismatch and loop recognition factors"
				},
				{
					"name":"Molecular matchmaker",
					"children":[
					{
						"name":"PAEH1_11605 DNA mismatch repair protein MutL\tK03572 mutL; DNA mismatch repair protein MutL"
					}
					]
				},
				{
					"name":"Strand discrimination factor"
				},
				{
					"name":"DNA exonucleases",
					"children":[
					{
						"name":"PAEH1_03275 exodeoxyribonuclease VII large subunit\tK03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]"
					},
					{
						"name":"PAEH1_12595 exodeoxyribonuclease VII small subunit\tK03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]"
					},
					{
						"name":"PAEH1_01610 DNA polymerase III subunit epsilon\tK10857 exoX; exodeoxyribonuclease X [EC:3.1.11.-]"
					}
					]
				},
				{
					"name":"DNA polymerase III holoenzyme",
					"children":[
					{
						"name":"PAEH1_08290 DNA polymerase III subunit beta\tK02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]"
					},
					{
						"name":"PAEH1_05005 DNA polymerase III subunit chi\tK02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]"
					},
					{
						"name":"PAEH1_04890 DNA polymerase III subunit delta\tK02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]"
					},
					{
						"name":"PAEH1_08710 hypothetical protein\tK02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]"
					}
					]
				},
				{
					"name":"DNA ligase",
					"children":[
					{
						"name":"PAEH1_05245 ligA; DNA ligase (NAD(+)) LigA\tK01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]"
					}
					]
				},
				{
					"name":"Other MMR factors",
					"children":[
					{
						"name":"PAEH1_03200 DNA helicase II\tK03657 uvrD; ATP-dependent DNA helicase UvrD\/PcrA [EC:5.6.2.4]"
					},
					{
						"name":"PAEH1_09620 hypothetical protein\tK03657 uvrD; ATP-dependent DNA helicase UvrD\/PcrA [EC:5.6.2.4]"
					},
					{
						"name":"PAEH1_01310 single-stranded DNA-binding protein\tK03111 ssb; single-strand DNA-binding protein"
					}
					]
				}
				]
			}
			]
		},
		{
			"name":"DSBR (double strand breaks repair)",
			"children":[
			{
				"name":"HR (homologous recombination)",
				"children":[
				{
					"name":"RecBC pathway proteins",
					"children":[
					{
						"name":"PAEH1_00900 recombinase RecA\tK03553 recA; recombination protein RecA"
					},
					{
						"name":"PAEH1_05955 Holliday junction branch migration protein RuvA\tK03550 ruvA; holliday junction DNA helicase RuvA"
					},
					{
						"name":"PAEH1_01405 hypothetical protein\tK01160 rusA; crossover junction endodeoxyribonuclease RusA [EC:3.1.21.10]"
					},
					{
						"name":"PAEH1_02735 hypothetical protein\tK01160 rusA; crossover junction endodeoxyribonuclease RusA [EC:3.1.21.10]"
					},
					{
						"name":"PAEH1_10310 primosomal protein N'\tK04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]"
					},
					{
						"name":"PAEH1_12620 primosomal replication protein N\tK02686 priB; primosomal replication protein N"
					},
					{
						"name":"PAEH1_01660 hypothetical protein\tK03546 sbcC; DNA repair protein SbcC\/Rad50"
					},
					{
						"name":"PAEH1_01665 exonuclease sbcCD subunit D\tK03547 sbcD; DNA repair protein SbcD\/Mre11"
					}
					]
				},
				{
					"name":"RecFOR pathway proteins",
					"children":[
					{
						"name":"PAEH1_00900 recombinase RecA\tK03553 recA; recombination protein RecA"
					},
					{
						"name":"PAEH1_01790 ATP-dependent DNA helicase RecG\tK03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]"
					},
					{
						"name":"PAEH1_03050 single-stranded-DNA-specific exonuclease RecJ\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					},
					{
						"name":"PAEH1_05025 DNA repair protein RecO\tK03584 recO; DNA repair protein RecO (recombination protein O)"
					},
					{
						"name":"PAEH1_00895 recombination-associated protein RdgC\tK03554 rdgC; recombination associated protein RdgC"
					},
					{
						"name":"PAEH1_01275 recombination-associated protein RdgC\tK03554 rdgC; recombination associated protein RdgC"
					},
					{
						"name":"PAEH1_05955 Holliday junction branch migration protein RuvA\tK03550 ruvA; holliday junction DNA helicase RuvA"
					}
					]
				},
				{
					"name":"AddAB pathway proteins"
				},
				{
					"name":"Other HR factor"
				},
				{
					"name":"Archaeal homologous recombinant proteins",
					"children":[
					{
						"name":"PAEH1_01660 hypothetical protein\tK03546 sbcC; DNA repair protein SbcC\/Rad50"
					},
					{
						"name":"PAEH1_01665 exonuclease sbcCD subunit D\tK03547 sbcD; DNA repair protein SbcD\/Mre11"
					}
					]
				}
				]
			},
			{
				"name":"NHEJ (non-homologous end-joining)",
				"children":[
				{
					"name":"Two-component NHEJ DNA repair complex"
				},
				{
					"name":"SHIIR (short-homology-independent illegitimate recombination)",
					"children":[
					{
						"name":"Facilitator"
					},
					{
						"name":"Supressor",
						"children":[
						{
							"name":"PAEH1_00795 DNA-binding protein HU\tK03530 hupB; DNA-binding protein HU-beta"
						}
						]
					}
					]
				},
				{
					"name":"SHDIR (short-homology-dependent illegitimate recombination)",
					"children":[
					{
						"name":"RecET pathway",
						"children":[
						{
							"name":"PAEH1_03050 single-stranded-DNA-specific exonuclease RecJ\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
						},
						{
							"name":"PAEH1_05025 DNA repair protein RecO\tK03584 recO; DNA repair protein RecO (recombination protein O)"
						},
						{
							"name":"PAEH1_05245 ligA; DNA ligase (NAD(+)) LigA\tK01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]"
						}
						]
					},
					{
						"name":"Facilitator",
						"children":[
						{
							"name":"PAEH1_05940 Fis family transcriptional regulator\tK03557 fis; Fis family transcriptional regulator, factor for inversion stimulation protein"
						},
						{
							"name":"PAEH1_01095 integration host factor subunit alpha\tK04764 ihfA; integration host factor subunit alpha"
						},
						{
							"name":"PAEH1_04545 integration host factor subunit beta\tK05788 ihfB; integration host factor subunit beta"
						}
						]
					},
					{
						"name":"Supressor",
						"children":[
						{
							"name":"PAEH1_07785 excinuclease ABC subunit A\tK03701 uvrA; excinuclease ABC subunit A"
						},
						{
							"name":"PAEH1_03110 excinuclease ABC subunit B\tK03702 uvrB; excinuclease ABC subunit B"
						},
						{
							"name":"PAEH1_04755 DNA-binding protein\tK03746 hns; DNA-binding protein H-NS"
						}
						]
					}
					]
				}
				]
			}
			]
		},
		{
			"name":"TLS (translesion DNA synthesis) factors",
			"children":[
			{
				"name":"Y-family DNA polymerases",
				"children":[
				{
					"name":"PAEH1_08340 DNA polymerase IV\tK02346 dinB; DNA polymerase IV [EC:2.7.7.7]"
				},
				{
					"name":"PAEH1_03900 hypothetical protein\tK03502 umuC; DNA polymerase V"
				},
				{
					"name":"PAEH1_03895 hypothetical protein\tK03503 umuD; DNA polymerase V [EC:3.4.21.-]"
				}
				]
			},
			{
				"name":"Other SOS response factors",
				"children":[
				{
					"name":"PAEH1_00900 recombinase RecA\tK03553 recA; recombination protein RecA"
				},
				{
					"name":"PAEH1_03120 repressor LexA\tK01356 lexA; repressor LexA [EC:3.4.21.88]"
				},
				{
					"name":"PAEH1_01310 single-stranded DNA-binding protein\tK03111 ssb; single-strand DNA-binding protein"
				},
				{
					"name":"PAEH1_00905 recombination regulator RecX\tK03565 recX; regulatory protein"
				}
				]
			}
			]
		},
		{
			"name":"Other factors with a suspected DNA repair function",
			"children":[
			{
				"name":"DNA polymerase"
			},
			{
				"name":"DNA helicases",
				"children":[
				{
					"name":"PAEH1_10315 ATP-dependent DNA helicase Rep\tK03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]"
				},
				{
					"name":"PAEH1_12410 helicase\tK03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]"
				}
				]
			},
			{
				"name":"Modulation of nucleotide pools",
				"children":[
				{
					"name":"PAEH1_03345 hypothetical protein\tK03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]"
				},
				{
					"name":"PAEH1_06955 NUDIX hydrolase\tK03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]"
				},
				{
					"name":"PAEH1_03240 deoxyuridine 5'-triphosphate nucleotidohydrolase\tK01520 dut; dUTP diphosphatase [EC:3.6.1.23]"
				},
				{
					"name":"PAEH1_00955 hypothetical protein\tK00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]"
				},
				{
					"name":"PAEH1_00960 hypothetical protein\tK00526 E1.17.4.1B; ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]"
				}
				]
			},
			{
				"name":"Others"
			}
			]
		}
		]
	}
	]
}