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Annotation rule MF_04140 |
General rule information
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Accession |
MF_04140 |
Dates |
23-MAY-2019 (Created) 20-NOV-2019 (Last updated, Version 5) |
Propagated annotation
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Identifier, protein and gene names
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Protein name |
RecName:
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Full=Flap endonuclease;
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Short=FEN;
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EC 3.1.11.-;
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AltName:
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Full=5'-3' exonuclease;
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AltName:
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Full=Exodeoxyribonuclease;
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EC 3.1.11.3;
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Function |
Catalyzes both the 5'-exonucleolytic and structure-specific endonucleolytic hydrolysis of DNA branched nucleic acid molecules and probably plays a role in viral genome replication. Active on flap (branched duplex DNA containing a free single-stranded 5'-end), 5'overhangs and pseudo-Y structures. The substrates require a free, single-stranded 5' end, with endonucleolytic hydrolysis occurring at the junction of double- and single-stranded DNA. This function may be used for example to trim such branched molecules generated by Okazaki fragments synthesis during replication. |
Catalytic activity |
Reaction=Exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 5'-phosphates.; EC=3.1.11.3; |
case <FTGroup:2> and <FTGroup:1>
Cofactor |
Mg(2+) K(+) Note: Binds divalent metal cations, probably Mg(2+). In vitro low metal concentrations selectively stimulate the endonuclease reaction. Endonuclease activity is suggested to require only the first cation, whereas exonuclease activity is suggested to require binding of both. High pH favors the exonuclase activity whereas low pH favors the endonuclease activity. Metal ions enhance substrate binding. K(+) is bound to the H3TH region; |
else
Cofactor |
Mg(2+) Note: Binds divalent metal cations, probably Mg(2+). In vitro low metal concentrations selectively stimulate the endonuclease reaction. Endonuclease activity is suggested to require only the first cation, whereas exonuclease activity is suggested to require binding of both. High pH favors the exonuclase activity whereas low pH favors the endonuclease activity. Metal ions enhance substrate binding |
end case
Domain |
Three alpha-helices form a helical arch which forms a hole in the protein and through which the 5' flap of the scissile ssDNA is threaded. |
case <FTGroup:1>
end case
GO:0008409; Molecular function: 5'-3' exonuclease activity.
GO:0017108; Molecular function: 5'-flap endonuclease activity.
GO:0003677; Molecular function: DNA binding.
GO:0046872; Molecular function: metal ion binding.
GO:0033567; Biological process: DNA replication, Okazaki fragment processing.
GO:0039693; Biological process: viral DNA genome replication.
General |
Coiled_coil; -; 0-unlimited; trigger=yes; |
From: FEN_BPT5 (P06229) |
Key
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From
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To
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Description
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Tag
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Condition
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FTGroup
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CHAIN
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Nter
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Cter
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Flap endonuclease
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DOMAIN
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190
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263
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5'-3' exonuclease
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REGION
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82
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116
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Helical arch
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Y-K-x*
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REGION
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188
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224
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DNA-binding; H3TH
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x(2)-[ED]-x*-G-D-x-x-D-x*
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METAL
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130
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130
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Magnesium 1; catalytic
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D
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METAL
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130
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130
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Magnesium 2; catalytic
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D
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2
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METAL
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153
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153
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Magnesium 2; catalytic
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D
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2
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METAL
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155
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155
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Magnesium 2; catalytic
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D
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2
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METAL
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155
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155
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Magnesium 3
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D
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METAL
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201
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201
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Magnesium 3
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D
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METAL
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209
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209
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Potassium; via carbonyl oxygen
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V
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1
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METAL
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212
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212
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Potassium; via carbonyl oxygen
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I
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1
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BINDING
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83
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83
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DNA
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K
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Additional information
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Size range |
200-350 amino acids |
Related rules |
None |
Fusion |
None |