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Protein

Flap endonuclease 1

Gene

fen

Organism
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

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. Binds the unpaired 3'-DNA end and kinks the DNA to facilitate 5' cleavage specificity. Cleaves one nucleotide into the double-stranded DNA from the junction in flap DNA, leaving a nick for ligation. Also involved in the base excision repair (BER) pathway. 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.1 Publication

Cofactori

Mg2+UniRule annotationNote: Binds 2 magnesium ions per subunit. They probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi27Magnesium 1UniRule annotation1
Metal bindingi80Magnesium 1UniRule annotation1
Metal bindingi152Magnesium 1UniRule annotation1
Metal bindingi154Magnesium 1UniRule annotation1
Metal bindingi173Magnesium 2UniRule annotation1
Metal bindingi175Magnesium 2UniRule annotation1
Metal bindingi236Magnesium 2UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Exonuclease, Hydrolase, Nuclease

Keywords - Biological processi

DNA damage, DNA repair, DNA replication

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BRENDAi3.1.99.B1. 5243.

Names & Taxonomyi

Protein namesi
Recommended name:
Flap endonuclease 1UniRule annotation (EC:3.1.-.-UniRule annotation)
Short name:
FEN-1UniRule annotation
Alternative name(s):
Flap structure-specific endonuclease 1UniRule annotation
Gene namesi
Name:fenUniRule annotation
Synonyms:fen-1
Ordered Locus Names:PF1414
OrganismiPyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Taxonomic identifieri186497 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000001013 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001540611 – 340Flap endonuclease 1Add BLAST340

Proteomic databases

PRIDEiO93634.

Interactioni

Subunit structurei

Interacts with PCNA. PCNA stimulates the nuclease activity without altering cleavage specificity.UniRule annotation

Protein-protein interaction databases

STRINGi186497.PF1414.

Structurei

Secondary structure

1340
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi6 – 8Combined sources3
Helixi16 – 19Combined sources4
Beta strandi23 – 27Combined sources5
Helixi28 – 38Combined sources11
Helixi56 – 70Combined sources15
Beta strandi74 – 79Combined sources6
Helixi98 – 100Combined sources3
Helixi103 – 111Combined sources9
Helixi114 – 122Combined sources9
Helixi125 – 127Combined sources3
Helixi129 – 142Combined sources14
Beta strandi146 – 148Combined sources3
Helixi153 – 162Combined sources10
Beta strandi165 – 170Combined sources6
Beta strandi172 – 174Combined sources3
Helixi175 – 178Combined sources4
Beta strandi182 – 187Combined sources6
Turni188 – 190Combined sources3
Beta strandi192 – 195Combined sources4
Beta strandi202 – 205Combined sources4
Beta strandi208 – 211Combined sources4
Helixi212 – 219Combined sources8
Helixi223 – 233Combined sources11
Helixi247 – 255Combined sources9
Helixi260 – 263Combined sources4
Helixi265 – 267Combined sources3
Helixi272 – 280Combined sources9
Helixi297 – 304Combined sources8
Turni305 – 308Combined sources4
Helixi312 – 328Combined sources17
Helixi329 – 333Combined sources5

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1B43X-ray2.00A/B1-340[»]
ProteinModelPortaliO93634.
SMRiO93634.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO93634.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 98N-domainAdd BLAST98
Regioni116 – 258I-domainAdd BLAST143
Regioni330 – 338Interaction with PCNAUniRule annotation9

Sequence similaritiesi

Belongs to the XPG/RAD2 endonuclease family. FEN1 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiarCOG04050. Archaea.
COG0258. LUCA.
HOGENOMiHOG000193852.
KOiK04799.
OMAiGSQDYDS.

Family and domain databases

CDDicd09867. PIN_FEN1. 1 hit.
Gene3Di3.40.50.1010. 1 hit.
HAMAPiMF_00614. Fen. 1 hit.
InterProiIPR020045. 5-3_exonuclease_C.
IPR023426. Flap_endonuc.
IPR019973. Flap_structure-sp_endonuc_arc.
IPR008918. HhH2.
IPR029060. PIN_domain-like.
IPR006086. XPG-I_dom.
IPR006084. XPG/Rad2.
IPR019974. XPG_CS.
IPR006085. XPG_DNA_repair_N.
[Graphical view]
PANTHERiPTHR11081. PTHR11081. 1 hit.
PfamiPF00867. XPG_I. 1 hit.
PF00752. XPG_N. 1 hit.
[Graphical view]
PRINTSiPR00853. XPGRADSUPER.
SMARTiSM00279. HhH2. 1 hit.
SM00484. XPGI. 1 hit.
SM00485. XPGN. 1 hit.
[Graphical view]
SUPFAMiSSF47807. SSF47807. 1 hit.
SSF88723. SSF88723. 1 hit.
TIGRFAMsiTIGR03674. fen_arch. 1 hit.
PROSITEiPS00841. XPG_1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O93634-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGVPIGEIIP RKEIELENLY GKKIAIDALN AIYQFLSTIR QKDGTPLMDS
60 70 80 90 100
KGRITSHLSG LFYRTINLME AGIKPVYVFD GEPPEFKKKE LEKRREAREE
110 120 130 140 150
AEEKWREALE KGEIEEARKY AQRATRVNEM LIEDAKKLLE LMGIPIVQAP
160 170 180 190 200
SEGEAQAAYM AAKGSVYASA SQDYDSLLFG APRLVRNLTI TGKRKLPGKN
210 220 230 240 250
VYVEIKPELI ILEEVLKELK LTREKLIELA ILVGTDYNPG GIKGIGLKKA
260 270 280 290 300
LEIVRHSKDP LAKFQKQSDV DLYAIKEFFL NPPVTDNYNL VWRDPDEEGI
310 320 330 340
LKFLCDEHDF SEERVKNGLE RLKKAIKSGK QSTLESWFKR
Length:340
Mass (Da):38,739
Last modified:May 1, 1999 - v1
Checksum:iD86D3D0F999E5D1E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF013497 Genomic DNA. Translation: AAD01514.1.
AE009950 Genomic DNA. Translation: AAL81538.1.
PIRiT46893.
RefSeqiWP_011012561.1. NC_003413.1.

Genome annotation databases

EnsemblBacteriaiAAL81538; AAL81538; PF1414.
GeneIDi1469290.
KEGGipfu:PF1414.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF013497 Genomic DNA. Translation: AAD01514.1.
AE009950 Genomic DNA. Translation: AAL81538.1.
PIRiT46893.
RefSeqiWP_011012561.1. NC_003413.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1B43X-ray2.00A/B1-340[»]
ProteinModelPortaliO93634.
SMRiO93634.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi186497.PF1414.

Proteomic databases

PRIDEiO93634.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL81538; AAL81538; PF1414.
GeneIDi1469290.
KEGGipfu:PF1414.

Phylogenomic databases

eggNOGiarCOG04050. Archaea.
COG0258. LUCA.
HOGENOMiHOG000193852.
KOiK04799.
OMAiGSQDYDS.

Enzyme and pathway databases

BRENDAi3.1.99.B1. 5243.

Miscellaneous databases

EvolutionaryTraceiO93634.

Family and domain databases

CDDicd09867. PIN_FEN1. 1 hit.
Gene3Di3.40.50.1010. 1 hit.
HAMAPiMF_00614. Fen. 1 hit.
InterProiIPR020045. 5-3_exonuclease_C.
IPR023426. Flap_endonuc.
IPR019973. Flap_structure-sp_endonuc_arc.
IPR008918. HhH2.
IPR029060. PIN_domain-like.
IPR006086. XPG-I_dom.
IPR006084. XPG/Rad2.
IPR019974. XPG_CS.
IPR006085. XPG_DNA_repair_N.
[Graphical view]
PANTHERiPTHR11081. PTHR11081. 1 hit.
PfamiPF00867. XPG_I. 1 hit.
PF00752. XPG_N. 1 hit.
[Graphical view]
PRINTSiPR00853. XPGRADSUPER.
SMARTiSM00279. HhH2. 1 hit.
SM00484. XPGI. 1 hit.
SM00485. XPGN. 1 hit.
[Graphical view]
SUPFAMiSSF47807. SSF47807. 1 hit.
SSF88723. SSF88723. 1 hit.
TIGRFAMsiTIGR03674. fen_arch. 1 hit.
PROSITEiPS00841. XPG_1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiFEN_PYRFU
AccessioniPrimary (citable) accession number: O93634
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 12, 2003
Last sequence update: May 1, 1999
Last modified: November 2, 2016
This is version 98 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.