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Protein

Flap endonuclease 1

Gene

fen

Organism
Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
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 bindingi28Magnesium 1UniRule annotation1
Metal bindingi80Magnesium 1UniRule annotation1
Metal bindingi149Magnesium 1UniRule annotation1
Metal bindingi151Magnesium 1UniRule annotation1
Metal bindingi170Magnesium 2UniRule annotation1
Metal bindingi172Magnesium 2UniRule annotation1
Metal bindingi234Magnesium 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

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:MK0566
OrganismiMethanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
Taxonomic identifieri190192 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanopyriMethanopyralesMethanopyraceaeMethanopyrus
Proteomesi
  • UP000001826 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001540541 – 348Flap endonuclease 1Add BLAST348

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi190192.MK0566.

Structurei

Secondary structure

1348
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi3 – 6Combined sources4
Helixi7 – 10Combined sources4
Helixi17 – 20Combined sources4
Beta strandi24 – 28Combined sources5
Helixi29 – 39Combined sources11
Helixi56 – 70Combined sources15
Beta strandi74 – 79Combined sources6
Helixi126 – 139Combined sources14
Beta strandi143 – 145Combined sources3
Helixi150 – 159Combined sources10
Beta strandi162 – 167Combined sources6
Beta strandi169 – 171Combined sources3
Helixi172 – 175Combined sources4
Beta strandi179 – 184Combined sources6
Beta strandi189 – 192Combined sources4
Turni194 – 196Combined sources3
Beta strandi199 – 202Combined sources4
Beta strandi205 – 208Combined sources4
Helixi209 – 216Combined sources8
Helixi221 – 231Combined sources11
Helixi245 – 255Combined sources11
Helixi259 – 263Combined sources5
Helixi267 – 273Combined sources7
Helixi278 – 286Combined sources9
Helixi303 – 310Combined sources8
Turni311 – 314Combined sources4
Helixi318 – 336Combined sources19

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4WA8X-ray2.20A/B1-348[»]
ProteinModelPortaliQ8TXU4.
SMRiQ8TXU4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 98N-domainAdd BLAST98
Regioni113 – 256I-domainAdd BLAST144
Regioni340 – 348Interaction 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.

Q8TXU4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGLAELRELI EPEETDLRAL AGREIAIDAF NALYQFLTTI MKDGRPLMDS
60 70 80 90 100
RGRITSHLNG LLYRTVNLVE EGIKPVYVFD GEPPDLKRET LERRRERKEE
110 120 130 140 150
AMEKLRRAKT KEEREKYARQ VARLDESLVE DAKRLLDLMG IPWVQAPSEG
160 170 180 190 200
EAQCAYMARC GDVWATGSQD YDSLLFGSPR LVRNITIVGK RKHPHTGEII
210 220 230 240 250
EVKPEIMRLE DVLDQLGLES REQLVDLAIL LGTDYNPDGV PGIGPKRALQ
260 270 280 290 300
LIRKYGSLDE LKDTDIWPKI ERHLPVEPEK LRRLFLEPEV TDDYELDWDE
310 320 330 340
PDEEGLVEFL VEERDFSEDR VRRAVERLKE ALQELRKGGR QETLDAFF
Length:348
Mass (Da):40,252
Last modified:June 1, 2002 - v1
Checksum:i2058C441900B7AF9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009439 Genomic DNA. Translation: AAM01781.1.

Genome annotation databases

EnsemblBacteriaiAAM01781; AAM01781; MK0566.
KEGGimka:MK0566.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009439 Genomic DNA. Translation: AAM01781.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4WA8X-ray2.20A/B1-348[»]
ProteinModelPortaliQ8TXU4.
SMRiQ8TXU4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi190192.MK0566.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM01781; AAM01781; MK0566.
KEGGimka:MK0566.

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]
ProtoNetiSearch...

Entry informationi

Entry nameiFEN_METKA
AccessioniPrimary (citable) accession number: Q8TXU4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 12, 2003
Last sequence update: June 1, 2002
Last modified: November 2, 2016
This is version 85 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.