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Protein

Flap endonuclease 1

Gene

fen

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
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 (By similarity).By similarity

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 bindingi151Magnesium 1UniRule annotation1
Metal bindingi153Magnesium 1UniRule annotation1
Metal bindingi172Magnesium 2UniRule annotation1
Metal bindingi174Magnesium 2UniRule annotation1
Metal bindingi235Magnesium 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. 171.

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:AF_0264
OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Taxonomic identifieri224325 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
Proteomesi
  • UP000002199 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001540501 – 336Flap endonuclease 1Add BLAST336

Interactioni

Subunit structurei

Interacts with PCNA. PCNA stimulates the nuclease activity without altering cleavage specificity.UniRule annotation1 Publication

Protein-protein interaction databases

STRINGi224325.AF0264.

Structurei

Secondary structure

1336
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi5 – 8Combined sources4
Helixi16 – 19Combined sources4
Beta strandi23 – 27Combined sources5
Helixi28 – 38Combined sources11
Helixi56 – 71Combined sources16
Beta strandi74 – 79Combined sources6
Helixi85 – 87Combined sources3
Helixi88 – 111Combined sources24
Helixi116 – 123Combined sources8
Helixi128 – 140Combined sources13
Beta strandi145 – 147Combined sources3
Helixi152 – 161Combined sources10
Beta strandi164 – 169Combined sources6
Beta strandi171 – 173Combined sources3
Helixi174 – 177Combined sources4
Beta strandi181 – 186Combined sources6
Beta strandi207 – 210Combined sources4
Helixi211 – 218Combined sources8
Helixi222 – 232Combined sources11
Helixi245 – 255Combined sources11
Helixi258 – 265Combined sources8
Helixi273 – 280Combined sources8
Helixi297 – 304Combined sources8
Turni305 – 308Combined sources4
Helixi312 – 319Combined sources8
Helixi320 – 322Combined sources3
Beta strandi327 – 329Combined sources3
Helixi332 – 334Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1RXVX-ray2.50A/B1-336[»]
1RXWX-ray2.00A1-336[»]
1RXZX-ray2.00B326-336[»]
ProteinModelPortaliO29975.
SMRiO29975.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO29975.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 98N-domainAdd BLAST98
Regioni115 – 256I-domainAdd BLAST142
Regioni328 – 336Interaction with PCNA9

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG04050. Archaea.
COG0258. LUCA.
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.
IPR002421. 5-3_exonuclease_N.
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.
SMARTiSM00475. 53EXOc. 1 hit.
SM00279. 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.

O29975-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGADIGDLFE REEVELEYFS GKKIAVDAFN TLYQFISIIR QPDGTPLKDS
60 70 80 90 100
QGRITSHLSG ILYRVSNMVE VGIRPVFVFD GEPPEFKKAE IEERKKRRAE
110 120 130 140 150
AEEMWIAALQ AGDKDAKKYA QAAGRVDEYI VDSAKTLLSY MGIPFVDAPS
160 170 180 190 200
EGEAQAAYMA AKGDVEYTGS QDYDSLLFGS PRLARNLAIT GKRKLPGKNV
210 220 230 240 250
YVDVKPEIII LESNLKRLGL TREQLIDIAI LVGTDYNEGV KGVGVKKALN
260 270 280 290 300
YIKTYGDIFR ALKALKVNID HVEEIRNFFL NPPVTDDYRI EFREPDFEKA
310 320 330
IEFLCEEHDF SRERVEKALE KLKALKSTQA TLERWF
Length:336
Mass (Da):38,065
Last modified:January 1, 1998 - v1
Checksum:i68778F204FD96F00
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90967.1.
PIRiH69282.
RefSeqiWP_010877775.1. NC_000917.1.

Genome annotation databases

EnsemblBacteriaiAAB90967; AAB90967; AF_0264.
GeneIDi24793800.
KEGGiafu:AF_0264.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90967.1.
PIRiH69282.
RefSeqiWP_010877775.1. NC_000917.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1RXVX-ray2.50A/B1-336[»]
1RXWX-ray2.00A1-336[»]
1RXZX-ray2.00B326-336[»]
ProteinModelPortaliO29975.
SMRiO29975.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224325.AF0264.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB90967; AAB90967; AF_0264.
GeneIDi24793800.
KEGGiafu:AF_0264.

Phylogenomic databases

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

Enzyme and pathway databases

BRENDAi3.1.99.B1. 171.

Miscellaneous databases

EvolutionaryTraceiO29975.

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.
IPR002421. 5-3_exonuclease_N.
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.
SMARTiSM00475. 53EXOc. 1 hit.
SM00279. 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_ARCFU
AccessioniPrimary (citable) accession number: O29975
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 12, 2003
Last sequence update: January 1, 1998
Last modified: November 2, 2016
This is version 110 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.