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PsychedeliaDokholyan Laboratory
TargetEnzymes

Flap endonuclease 1

Named enzymes, including the metabolising cytochromes and the monoamine oxidases.

Measurements
7
Compounds
6
Binding constants
0
Median pX
—

I · Identity

What this target is

Its function as UniProt states it, where in a cell the protein is found, and which cell types and tissues transcribe its gene.

Protein

FEN1_HUMANFEN1Homo sapiens

Flap endonuclease 1

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. It enters the flap from the 5'-end and then tracks to cleave the flap base, leaving a nick for ligation. Also involved in the long patch base excision repair (LP-BER) pathway, by cleaving within the apurinic/apyrimidinic (AP) site-terminated flap. 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, and exhibits RNase H activity. Also involved in replication and repair of rDNA and in repairing mitochondrial DNA

Quoted from UniProt’s FUNCTION annotation for P39748 (reviewed).

What it acts with

STRING’s highest-confidence human functional partners. The combined score mixes several kinds of evidence, so each channel is shown separately — a partner supported by experiment is a different claim from one supported only by text mining, and for a receptor this is where its coupling appears as evidence rather than as assertion.

PartnerCombinedExperimentDatabaseText mining
PCNA0.9990.9990.5000.505
LIG10.9990.9420.5000.973
APEX10.9980.3100.8000.989
WRN0.9980.8100.0000.991
POLD10.9970.9410.5000.856
DNA20.9960.8380.0000.974
POLD20.9950.9410.5000.796
POLB0.9870.0940.9000.857
MRE110.9840.8780.5000.742
POLD30.9830.9410.5000.411

Where it sits in the cell

  • Nucleoplasm
  • Nucleoliadditional

Human Protein Atlas, by antibody immunofluorescence in cell lines — a different assay from the expression figures below, which are RNA.

UniProt, curated Nucleus, nucleolus · Nucleus, nucleoplasm · Mitochondrion

Expression by cell type

Single cell type RNA, the 8 highest of those the Human Protein Atlas reports for this gene. Transcript, not protein, and a cell type rather than a tissue.

  • Oocytes4.6 nCPM
  • Early primary spermatocytes3.8 nCPM
  • Erythrocyte progenitors3.5 nCPM
  • Late primary spermatocytes1.8 nCPM
  • Megakaryocyte progenitors1.5 nCPM
  • Early spermatids1.3 nCPM
  • Differentiating spermatogonia1.2 nCPM
  • Monocyte progenitors1.1 nCPM

Expression by tissue

The tissues this gene is enriched in, by consensus RNA. A tissue absent from this list is one the Atlas does not call specific for this gene, which is not the same as absent from it.

  • lymphoid tissue42.9 nTPM

II · Anatomy

Where the gene is transcribed

The same two atlases the compound plates use, asked about this gene alone. Brain on the left, peripheral and autonomic tissues on the right.

Brain

cerebral cortex — 12.4 nTPM, from FEN1cerebellum — 17.8 nTPM, from FEN1hippocampal formation — 8.6 nTPM, from FEN1amygdala — 8.1 nTPM, from FEN1hypothalamus — 9.0 nTPM, from FEN1thalamus — no resolved target expressed herebasal ganglia — 8.4 nTPM, from FEN1medulla oblongata — no resolved target expressed here

basal ganglia: drawn as the caudate nucleus, putamen and globus pallidus.

Measured but not drawn — this anatomogram has no outline for them: retina 16.2, pituitary gland 8.9, midbrain 8.5, spinal cord 8.5.

Body

heart — 6.4 nTPM, from FEN1smooth muscle — 8.3 nTPM, from FEN1lung — 5.5 nTPM, from FEN1liver — 10.2 nTPM, from FEN1kidney — 5.4 nTPM, from FEN1stomach — 8.5 nTPM, from FEN1duodenum — 10.5 nTPM, from FEN1small intestine — 10.7 nTPM, from FEN1colon — 14.5 nTPM, from FEN1adrenal gland — 10.8 nTPM, from FEN1thyroid gland — 4.5 nTPM, from FEN1pancreas — 7.0 nTPM, from FEN1urinary bladder — 7.6 nTPM, from FEN1skeletal muscle — 13.9 nTPM, from FEN1spleen — 13.8 nTPM, from FEN1salivary gland — 6.5 nTPM, from FEN1
018 nTPM

Square-root ramp · shared scale across both plates

Shading is transcript level — not affinity, and not affinity combined with expression. Outlined but unshaded organs hold none of FEN1 transcript above the atlas’s detection threshold. Anatomy from EMBL-EBI Anatomogram (Apache License 2.0); regions identified by Uberon (uberon.org), CC BY 3.0.

Brain · 10

  • cerebellum17.8 nTPM
  • retina16.2 nTPM
  • cerebral cortex12.4 nTPM
  • hypothalamus9.0 nTPM
  • pituitary gland8.9 nTPM
  • hippocampal formation8.6 nTPM
  • midbrain8.5 nTPM
  • spinal cord8.5 nTPM
  • basal ganglia8.4 nTPM
  • amygdala8.1 nTPM

Peripheral and autonomic · 16

  • colon14.5 nTPM
  • skeletal muscle13.9 nTPM
  • spleen13.8 nTPM
  • adrenal gland10.8 nTPM
  • small intestine10.7 nTPM
  • duodenum10.5 nTPM
  • liver10.2 nTPM
  • stomach 18.5 nTPM
  • smooth muscle8.3 nTPM
  • urinary bladder7.6 nTPM
  • pancreas7.0 nTPM
  • salivary gland6.5 nTPM
  • heart muscle6.4 nTPM
  • lung5.5 nTPM
  • kidney5.4 nTPM
  • thyroid gland4.5 nTPM

Transcript is not protein. These are RNA levels for FEN1, shaded on √nTPM so that a three-order range stays legible — on a linear ramp every region but the strongest would read as blank, which looks like absence rather than less. A region carrying no shading is one the atlas reports no consensus value for, not one where the gene is silent. And a gene being transcribed somewhere is not evidence that any compound reaches it. Human Protein Atlas, RNA expression, nTPM (normalized transcripts per million), consensus tissue dataset.

IV · Evidence

Every measurement at this target

Each row links to the ChEMBL assay it came from.

Functional readouts 7

IC₅₀, EC₅₀, AC₅₀ and potency. Assay-dependent, and not interchangeable with a binding constant.

TargetClassTypeValue (nM)pXOrganismAssay
Flap endonuclease 1EnzymesPotency— no normalized value— value does not convert to pXHomo sapiensCHEMBL1794486
Flap endonuclease 1EnzymesPotency— no normalized value— value does not convert to pXHomo sapiensCHEMBL1794486
Flap endonuclease 1EnzymesPotency— no normalized value— value does not convert to pXHomo sapiensCHEMBL1794486
Flap endonuclease 1EnzymesPotency— no normalized value— value does not convert to pXHomo sapiensCHEMBL1794486
Flap endonuclease 1EnzymesPotency— no normalized value— value does not convert to pXHomo sapiensCHEMBL1794486
Flap endonuclease 1EnzymesPotency— no normalized value— value does not convert to pXHomo sapiensCHEMBL1794486
Flap endonuclease 1EnzymesPotency— no normalized value— value does not convert to pXHomo sapiensCHEMBL1613922
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