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Protein

Flap endonuclease 1

Gene

fen

Organism
Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
Status
Reviewed-Annotation score: Annotation score: 4 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 (By similarity). DNA polymerase I, DNA ligase and the flap endonuclease may be constitutively associated with the PCNA heterotrimer forming a scanning complex able to couple DNA synthesis and Okazaki fragment maturation.By similarity1 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

Enzyme regulationi

Heterotrimeric PCNA stimulates the nuclease activity without altering cleavage specificity.1 Publication

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. 6163.

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
Ordered Locus Names:SSO0179
OrganismiSulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
Taxonomic identifieri273057 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus
Proteomesi
  • UP000001974 Componenti: Chromosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi341 – 349Missing : No interaction with PCNA1. 1 Publication9

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001540651 – 349Flap endonuclease 1Add BLAST349

Interactioni

Subunit structurei

Interacts with PCNA via subunit PCNA1.2 Publications

Protein-protein interaction databases

STRINGi273057.SSO0179.

Structurei

Secondary structure

1349
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi16 – 19Combined sources4
Beta strandi22 – 27Combined sources6
Helixi28 – 37Combined sources10
Beta strandi50 – 52Combined sources3
Helixi56 – 70Combined sources15
Beta strandi73 – 79Combined sources7
Helixi129 – 142Combined sources14
Beta strandi146 – 148Combined sources3
Helixi153 – 162Combined sources10
Beta strandi165 – 170Combined sources6
Beta strandi172 – 174Combined sources3
Helixi175 – 178Combined sources4
Beta strandi182 – 188Combined sources7
Beta strandi208 – 211Combined sources4
Helixi212 – 219Combined sources8
Helixi223 – 233Combined sources11
Beta strandi236 – 238Combined sources3
Helixi247 – 256Combined sources10
Helixi281 – 286Combined sources6
Helixi304 – 310Combined sources7
Turni311 – 315Combined sources5
Helixi319 – 340Combined sources22
Helixi345 – 347Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2IZOX-ray2.90A5-349[»]
ProteinModelPortaliQ980U8.
SMRiQ980U8.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ980U8.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 98N-domainAdd BLAST98
Regioni116 – 258I-domainAdd BLAST143
Regioni341 – 349Interaction with PCNA9

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG04050. Archaea.
COG0258. LUCA.
HOGENOMiHOG000193852.
InParanoidiQ980U8.
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.

Q980U8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDLADLVKDV KRELSFSELK GKRVSIDGYN ALYQFLAAIR QPDGTPLMDS
60 70 80 90 100
QGRVTSHLSG LFYRTINILE EGVIPIYVFD GKPPEQKSEE LERRRKAKEE
110 120 130 140 150
AERKLERAKS EGKIEELRKY SQAILRLSNI MVEESKKLLR AMGIPIVQAP
160 170 180 190 200
SEGEAEAAYL NKLGLSWAAA SQDYDAILFG AKRLVRNLTI TGKRKLPNKD
210 220 230 240 250
VYVEIKPELI ETEILLKKLG ITREQLIDIG ILIGTDYNPD GIRGIGPERA
260 270 280 290 300
LKIIKKYGKI EKAMEYGEIS KKDINFNIDE IRGLFLNPQV VKPEEALDLN
310 320 330 340
EPNGEDIINI LVYEHNFSEE RVKNGIERLT KAIKEAKGAS RQTGLDRWF
Length:349
Mass (Da):39,598
Last modified:February 12, 2003 - v2
Checksum:i7210395FD749C94C
GO

Sequence cautioni

The sequence AAK40525 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006641 Genomic DNA. Translation: AAK40525.1. Different initiation.
RefSeqiWP_009990408.1. NC_002754.1.

Genome annotation databases

EnsemblBacteriaiAAK40525; AAK40525; SSO0179.
GeneIDi27426471.
KEGGisso:SSO0179.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006641 Genomic DNA. Translation: AAK40525.1. Different initiation.
RefSeqiWP_009990408.1. NC_002754.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2IZOX-ray2.90A5-349[»]
ProteinModelPortaliQ980U8.
SMRiQ980U8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi273057.SSO0179.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAK40525; AAK40525; SSO0179.
GeneIDi27426471.
KEGGisso:SSO0179.

Phylogenomic databases

eggNOGiarCOG04050. Archaea.
COG0258. LUCA.
HOGENOMiHOG000193852.
InParanoidiQ980U8.
KOiK04799.
OMAiGSQDYDS.

Enzyme and pathway databases

BRENDAi3.1.99.B1. 6163.

Miscellaneous databases

EvolutionaryTraceiQ980U8.

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_SULSO
AccessioniPrimary (citable) accession number: Q980U8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 12, 2003
Last sequence update: February 12, 2003
Last modified: November 30, 2016
This is version 94 of the entry and version 2 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.