{
	"name":"afu03400",
	"children":[
	{
		"name":"Eukaryotic type",
		"children":[
		{
			"name":"SSBR (single strand breaks repair)",
			"children":[
			{
				"name":"Direct repair",
				"children":[
				{
					"name":"AF_2314 methylated-DNA-protein-cysteine methyltransferase (ogt)\tK00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]"
				}
				]
			},
			{
				"name":"BER (base exicision repair)",
				"children":[
				{
					"name":"DNA glycosylases",
					"children":[
					{
						"name":"AF_1692 endonuclease III (nth)\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":"AF_0335 proliferating-cell nuclear antigen (pol30)\tK04802 PCNA; proliferating cell nuclear antigen"
					},
					{
						"name":"AF_0264 DNA repair protein RAD2 (rad2)\tK04799 FEN1; flap endonuclease-1 [EC:3.1.-.-]"
					},
					{
						"name":"AF_0623 DNA ligase (lig)\tK10747 LIG1; DNA ligase 1 [EC:6.5.1.1 6.5.1.6 6.5.1.7]"
					}
					]
				},
				{
					"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",
					"children":[
					{
						"name":"AF_2418 DNA repair protein, putative\tK10848 ERCC4; DNA excision repair protein ERCC-4 [EC:3.1.-.-]"
					},
					{
						"name":"AF_0623 DNA ligase (lig)\tK10747 LIG1; DNA ligase 1 [EC:6.5.1.1 6.5.1.6 6.5.1.7]"
					}
					]
				}
				]
			},
			{
				"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",
					"children":[
					{
						"name":"AF_0335 proliferating-cell nuclear antigen (pol30)\tK04802 PCNA; proliferating cell nuclear antigen"
					},
					{
						"name":"AF_0623 DNA ligase (lig)\tK10747 LIG1; DNA ligase 1 [EC:6.5.1.1 6.5.1.6 6.5.1.7]"
					}
					]
				}
				]
			}
			]
		},
		{
			"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",
				"children":[
				{
					"name":"AF_0335 proliferating-cell nuclear antigen (pol30)\tK04802 PCNA; proliferating cell nuclear antigen"
				}
				]
			}
			]
		},
		{
			"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":"AF_1234 mutator protein MutT (mutT)\tK03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]"
				},
				{
					"name":"AF_1108 deoxycytidine triphosphate deaminase, putative\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":"AF_2314 methylated-DNA-protein-cysteine methyltransferase (ogt)\tK00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]"
				}
				]
			},
			{
				"name":"BER (base exicision repair)",
				"children":[
				{
					"name":"DNA glycosylases",
					"children":[
					{
						"name":"AF_2277 DNA polymerase, bacteriophage-type\tK21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]"
					},
					{
						"name":"AF_2117 3-methyladenine DNA glycosylase (alkA)\tK01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]"
					},
					{
						"name":"AF_1692 endonuclease III (nth)\tK10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]"
					}
					]
				},
				{
					"name":"AP endonucleases",
					"children":[
					{
						"name":"AF_0580 exodeoxyribonuclease III (xthA)\tK01142 xthA; exodeoxyribonuclease III [EC:3.1.11.2]"
					},
					{
						"name":"AF_0129 conserved hypothetical protein\tK05982 nfi; deoxyribonuclease V [EC:3.1.21.7]"
					},
					{
						"name":"AF_1433 conserved hypothetical protein\tK09120 dU; endonuclease dU"
					}
					]
				},
				{
					"name":"RecJ",
					"children":[
					{
						"name":"AF_0075 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					},
					{
						"name":"AF_0699 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					},
					{
						"name":"AF_0735 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					}
					]
				},
				{
					"name":"DNA ligase"
				},
				{
					"name":"DNA polymerase I"
				}
				]
			},
			{
				"name":"NER (nucleotide excision repair)",
				"children":[
				{
					"name":"GGR (global genome repair) factors"
				},
				{
					"name":"TCR (transcription coupled repair) factors",
					"children":[
					{
						"name":"DNA-directed RNA polymerase complex (RNAP)"
					},
					{
						"name":"TRCF (transcription-repair coupling factor)"
					}
					]
				}
				]
			},
			{
				"name":"MMR (mismatch excision repair)",
				"children":[
				{
					"name":"Mismatch and loop recognition factors"
				},
				{
					"name":"Molecular matchmaker"
				},
				{
					"name":"Strand discrimination factor"
				},
				{
					"name":"DNA exonucleases"
				},
				{
					"name":"DNA polymerase III holoenzyme",
					"children":[
					{
						"name":"AF_0972 DNA polymerase III, subunit epsilon (dnaQ)\tK02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]"
					}
					]
				},
				{
					"name":"DNA ligase"
				},
				{
					"name":"Other MMR factors"
				}
				]
			}
			]
		},
		{
			"name":"DSBR (double strand breaks repair)",
			"children":[
			{
				"name":"HR (homologous recombination)",
				"children":[
				{
					"name":"RecBC pathway proteins",
					"children":[
					{
						"name":"AF_1032 purine NTPase, putative\tK03546 sbcC; DNA repair protein SbcC\/Rad50"
					},
					{
						"name":"AF_1031 DNA repair protein RAD32 (rad32)\tK03547 sbcD; DNA repair protein SbcD\/Mre11"
					}
					]
				},
				{
					"name":"RecFOR pathway proteins",
					"children":[
					{
						"name":"AF_0075 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					},
					{
						"name":"AF_0699 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					},
					{
						"name":"AF_0735 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
					}
					]
				},
				{
					"name":"AddAB pathway proteins"
				},
				{
					"name":"Other HR factor",
					"children":[
					{
						"name":"AF_1878 conserved hypothetical protein\tK15342 cas1; CRISP-associated protein Cas1"
					},
					{
						"name":"AF_2435 conserved hypothetical protein\tK15342 cas1; CRISP-associated protein Cas1"
					}
					]
				},
				{
					"name":"Archaeal homologous recombinant proteins",
					"children":[
					{
						"name":"AF_0993 DNA repair protein RAD51 (radA)\tK04483 radA; DNA repair protein RadA"
					},
					{
						"name":"AF_2096 DNA repair protein REC\tK04484 radB; DNA repair protein RadB"
					},
					{
						"name":"AF_1965 conserved hypothetical protein\tK03552 hjr; holliday junction resolvase [EC:3.1.21.10]"
					},
					{
						"name":"AF_1032 purine NTPase, putative\tK03546 sbcC; DNA repair protein SbcC\/Rad50"
					},
					{
						"name":"AF_1031 DNA repair protein RAD32 (rad32)\tK03547 sbcD; DNA repair protein SbcD\/Mre11"
					},
					{
						"name":"AF_1030 conserved hypothetical protein\tK06915 herA; DNA double-strand break repair helicase HerA and related ATPase"
					},
					{
						"name":"AF_1033 conserved hypothetical protein\tK25510 nurA; DNA double-strand break repair nuclease NurA [EC:3.1.-.-]"
					}
					]
				}
				]
			},
			{
				"name":"NHEJ (non-homologous end-joining)",
				"children":[
				{
					"name":"Two-component NHEJ DNA repair complex",
					"children":[
					{
						"name":"AF_1726 conserved hypothetical protein\tK10979 ku; DNA end-binding protein Ku"
					},
					{
						"name":"AF_1725 DNA ligase, putative\tK01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]"
					}
					]
				},
				{
					"name":"SHIIR (short-homology-independent illegitimate recombination)",
					"children":[
					{
						"name":"Facilitator",
						"children":[
						{
							"name":"AF_0465 DNA gyrase, subunit A (gyrA)\tK02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]"
						},
						{
							"name":"AF_0530 DNA gyrase, subunit B (gyrB)\tK02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]"
						},
						{
							"name":"AF_1806 DNA topoisomerase I (topA)\tK03168 topA; DNA topoisomerase I [EC:5.6.2.1]"
						}
						]
					},
					{
						"name":"Supressor"
					}
					]
				},
				{
					"name":"SHDIR (short-homology-dependent illegitimate recombination)",
					"children":[
					{
						"name":"RecET pathway",
						"children":[
						{
							"name":"AF_0075 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
						},
						{
							"name":"AF_0699 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
						},
						{
							"name":"AF_0735 conserved hypothetical protein\tK07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]"
						}
						]
					},
					{
						"name":"Facilitator"
					},
					{
						"name":"Supressor"
					}
					]
				}
				]
			}
			]
		},
		{
			"name":"TLS (translesion DNA synthesis) factors",
			"children":[
			{
				"name":"Y-family DNA polymerases"
			},
			{
				"name":"Other SOS response factors"
			}
			]
		},
		{
			"name":"Other factors with a suspected DNA repair function",
			"children":[
			{
				"name":"DNA polymerase"
			},
			{
				"name":"DNA helicases",
				"children":[
				{
					"name":"AF_1149 large helicase-related protein (lhr-1)\tK03724 lhr; ATP-dependent helicase Lhr and Lhr-like helicase [EC:5.6.2.6 5.6.2.4]"
				}
				]
			},
			{
				"name":"Modulation of nucleotide pools",
				"children":[
				{
					"name":"AF_1234 mutator protein MutT (mutT)\tK03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]"
				},
				{
					"name":"AF_1108 deoxycytidine triphosphate deaminase, putative\tK01520 dut; dUTP diphosphatase [EC:3.6.1.23]"
				},
				{
					"name":"AF_1664 ribonucleotide reductase (nrd)\tK00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]"
				}
				]
			},
			{
				"name":"Others",
				"children":[
				{
					"name":"AF_1590 predicted coding region AF_1590\tK22585 nreA; DNA repair protein NreA"
				}
				]
			}
			]
		}
		]
	}
	]
}