Protein: Flap endonuclease 1-A (FEN-1-A) (EC 3.1.-.-) (Flap structure-specific endonuclease 1-A) (OsFEN-1) (OsFEN-1a) (Q9SXQ6)
Organism: Oryza sativa subsp. japonica (Rice)
Function: Structure-specific nuclease with 5'-flap endonuclease and 5'-3' exonuclease activities involved in DNA replication and repair. During DNA replication, cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. It enters the flap from the 5'-end and then tracks to cleave the flap base, leaving a nick for ligation. Also involved in the long patch base excision repair (LP-BER) pathway, by cleaving within the apurinic/apyrimidinic (AP) site-terminated flap. Acts as a genome stabilization factor that prevents flaps from equilibrating into structures that lead to duplications and deletions. Also possesses 5'-3' exonuclease activity on nicked or gapped double-stranded DNA, and exhibits RNase H activity. Also involved in replication and repair of rDNA and in repairing mitochondrial DNA (By similarity). May be required for cell proliferation.
Subcellular location: Nucleus, nucleolus {ECO:0000255|HAMAP-Rule:MF_03140, ECO:0000269|PubMed:11851910}. Nucleus, nucleoplasm {ECO:0000255|HAMAP-Rule:MF_03140}. Mitochondrion {ECO:0000255|HAMAP-Rule:MF_03140}. Note=Resides mostly in the nucleoli and relocalizes to the nucleoplasm upon DNA damage. {ECO:0000255|HAMAP-Rule:MF_03140}.
Sequence: MGIKGLTKLLADNAPKAMKEQKFESYFGRRIAVDASMSIYQFLIVVGRTGMETLTNEAGEVTSHLQGMFNRTIRLLEAGIKPVYVFDGKPPDLKKQELAKRYSKREDATKELTEAVEEGDKDAIEKFSKRTVKVTKQHNEECKRLLRLMGVPVVEAPCEAEAECAALCINDMVYAVASEDMDSLTFGAPRFLRHLMDPSSKKIPVMEFEVAKVLEELELTMDQFIDLCILSGCDYCDSIKGIGGQTALKLIRQHGSIESILENINKDRYQIPEDWPYQEARRLFKEPNVTLDIPELKWNAPDEEGLVEFLVKENGFNQDRVTKAIEKIKFAKNKSSQGRLESFFKPVVSTSVPLKRKDTSEKPTKAVANKKTKGAGGKKK
InterPro domains: - IPR006086: XPG-I domain (domain) [147-234]
- IPR019974: XPG conserved site (conserved_site) [80-164]
- IPR008918: Helix-hairpin-helix motif, class 2 (conserved_site) [221-254]
- IPR006084: XPG/Rad2 endonuclease (family) [1-357]
- IPR029060: PIN-like domain superfamily (homologous_superfamily) [2-234]
- IPR023426: Flap endonuclease 1 (family) [1-345]
- IPR002421: 5'-3' exonuclease (domain) [29-299]
- IPR036279: 5'-3' exonuclease, C-terminal domain superfamily (homologous_superfamily) [219-351]
- IPR006085: XPG, N-terminal (domain) [1-108]
Interaction partners: - Proliferating cell nuclear antigen
- Os01g0685500 protein
- DNA polymerase delta catalytic subunit
- Os01g0660500 protein
- ATP-dependent DNA helicase
- DNA ligase
- DNA polymerase delta small subunit
- DNA replication ATP-dependent helicase/nuclease
- Os05g0358200 protein
- Flap endonuclease 1-B
Gene Ontology annotations:
Molecular Function (MF): GO:0003674 (molecular function), GO:0003824 (catalytic activity), GO:0005488 (binding), GO:0097159 (organic cyclic compound binding), GO:1901363 (heterocyclic compound binding), GO:0016787 (hydrolase activity), GO:0140640 (catalytic activity, acting on a nucleic acid), GO:0003676 (nucleic acid binding), GO:0140098 (catalytic activity, acting on RNA), GO:0016788 (hydrolase activity, acting on ester bonds), GO:0140097 (catalytic activity, acting on DNA), GO:0004518 (nuclease activity), GO:0003677 (DNA binding), GO:0004536 (deoxyribonuclease activity), GO:0003690 (double-stranded DNA binding), GO:0004527 (exonuclease activity), GO:0004520 (DNA endonuclease activity), GO:0004529 (DNA exonuclease activity), GO:0004519 (endonuclease activity), GO:0048256 (flap endonuclease activity)
Biological Process (BP): GO:0008150 (biological process), GO:0008152 (metabolic process), GO:0050896 (response to stimulus), GO:0009987 (cellular process), GO:0044237 (cellular metabolic process), GO:0006807 (nitrogen compound metabolic process), GO:0051716 (cellular response to stimulus), GO:0006950 (response to stress), GO:0071704 (organic substance metabolic process), GO:0044238 (primary metabolic process), GO:1901360 (organic cyclic compound metabolic process), GO:0006139 (nucleobase-containing compound metabolic process), GO:0046483 (heterocycle metabolic process), GO:0033554 (cellular response to stress), GO:0006725 (cellular aromatic compound metabolic process), GO:0034641 (cellular nitrogen compound metabolic process), GO:0044260 (cellular macromolecule metabolic process), GO:0043170 (macromolecule metabolic process), GO:0090304 (nucleic acid metabolic process), GO:0006974 (cellular response to DNA damage stimulus), GO:0006259 (DNA metabolic process), GO:0006260 (DNA replication), GO:0006281 (DNA repair)
Cellular Component (CC): GO:0005575 (cellular component), GO:0110165 (cellular anatomical entity), GO:0005622 (intracellular anatomical structure), GO:0043226 (organelle), GO:0043229 (intracellular organelle), GO:0043227 (membrane-bounded organelle), GO:0043231 (intracellular membrane-bounded organelle), GO:0005634 (nucleus)