Literature summary for 3.1.13.4 extracted from

Anastasakis, D.; Skeparnias, I.; Shaukat, A.N.; Grafanaki, K.; Kanellou, A.; Taraviras, S.; Papachristou, D.J.; Papakyriakou, A.; Stathopoulos, C.
Mammalian PNLDC1 is a novel poly(A) specific exonuclease with discrete expression during early development (2016), Nucleic Acids Res., 44, 8908-8920 .

Cloned(Commentary)

Cloned (Comment)	Organism
gene PNLDC1, human PNLDC1-1 and PNLDC1-2 exons arrangement, recombinant expression of EGFP-tagged enzyme in HEK-293 cells, enzyme HsPNLDC1 is produced in two isoforms by alternative splicing of the full-length transcript that contains 19 exons, the peptide residues 1-25 (MDVGADEFEESLPLLQELVQEADFV) of isoform 1 are replaced by the peptide residues 1-14 (MFCTRGLLFFAFLA) in isoform 2 (according to the NCBI annotation), recombinant expression of His-tagged enzyme in Escherichia coli	Homo sapiens
gene PNLDC1, recombinant expression of EGFP-tagged enzyme in HEK-293 cells, mouse PNLDC1 has one predicted isoform, recombinant expression of His-tagged enzyme in Escherichia coli	Mus musculus

Cloned (Comment)

Organism

gene PNLDC1, human PNLDC1-1 and PNLDC1-2 exons arrangement, recombinant expression of EGFP-tagged enzyme in HEK-293 cells, enzyme HsPNLDC1 is produced in two isoforms by alternative splicing of the full-length transcript that contains 19 exons, the peptide residues 1-25 (MDVGADEFEESLPLLQELVQEADFV) of isoform 1 are replaced by the peptide residues 1-14 (MFCTRGLLFFAFLA) in isoform 2 (according to the NCBI annotation), recombinant expression of His-tagged enzyme in Escherichia coli

Homo sapiens

gene PNLDC1, recombinant expression of EGFP-tagged enzyme in HEK-293 cells, mouse PNLDC1 has one predicted isoform, recombinant expression of His-tagged enzyme in Escherichia coli

Mus musculus

Localization

Localization	Comment	Organism	GeneOntology No.	Textmining
endoplasmic reticulum	PNLDC1 is localized predominantly in the endoplasmic reticulum	Homo sapiens	5783	-
endoplasmic reticulum	PNLDC1 is localized predominantly in the endoplasmic reticulum	Mus musculus	5783	-
membrane	residues 506-525 in HsPNLDC1-1 represent a putative transmembrane domain	Homo sapiens	16020	-
additional information	not in nucleus	Homo sapiens	-	-
additional information	not in nucleus	Mus musculus	-	-

Metals/Ions

Metals/Ions	Comment	Organism	Structure
Mg2+	required	Homo sapiens
Mg2+	required	Mus musculus

Organism

Organism	UniProt	Comment	Textmining
Homo sapiens	Q8NA58	-	-
Mus musculus	B2RXZ1	-	-

Purification (Commentary)

Purification (Comment)	Organism
recombinant His-tagged enzyme from Escherichia coli by nickel affinity chromatography	Homo sapiens
recombinant His-tagged enzyme from Escherichia coli by nickel affinity chromatography	Mus musculus

Source Tissue

Source Tissue	Comment	Organism	Textmining
cell culture	differentiated cells express PNLDC1 only after demethylation	Homo sapiens	-
cell culture	differentiated cells express PNLDC1 only after demethylation	Mus musculus	-
embryonic stem cell	E14	Mus musculus	-
additional information	PNLDC1 is present in stem and germ cells and fades during embryogenesis and early differentiation. Pnldc1 is highly expressed in mouse embryonic stem cells (E14) and testes, whereas expression in skin, late embryos and ovaries is almost undetectable (albeit slightly higher in ovaries than other organs)	Mus musculus	-
ovary	low expression level	Mus musculus	-
testis	-	Mus musculus	-

Substrates and Products (Substrate)

Substrates	Comment Substrates	Organism	Products	Comment (Products)	Rev.	Reac.
additional information	usage of synthetic oligoRNA substrates: N9A15, A12, U12, C12, G12 and dA12. Activity modulation experiments in the presence of m7G(5')ppp(5')G cap analogue. The recombinant enzyme exhibits specific deadenylation activity in vitro, with very high specificity for recognition of poly(A) or poly(dA)	Homo sapiens	?	-	?
additional information	usage of synthetic oligoRNA substrates: N9A15, A12, U12, C12, G12 and dA12. Activity modulation experiments in the presence of m7G(5')ppp(5')G cap analogue. The recombinant enzyme exhibits specific deadenylation activity in vitro, with very high specificity for recognition of poly(A) or poly(dA)	Mus musculus	?	-	?

Subunits

Subunits	Comment	Organism
?	x * 61300, isozyme 1 of HsPNLDC1, sequence calculation, x * 60100, isozyme 2 of HsPNLDC1, sequence calculation	Homo sapiens
?	x * 61300, MmPNLDC1, sequence calculation	Mus musculus

Synonyms

Synonyms	Comment	Organism
HsPNLDC1	-	Homo sapiens
PARN-like domain-containing protein 1	-	Homo sapiens
PARN-like domain-containing protein 1	-	Mus musculus
PNLDC1	-	Homo sapiens
PNLDC1	-	Mus musculus

Temperature Optimum [°C]

Temperature Optimum [°C]	Temperature Optimum Maximum [°C]	Comment	Organism
37	-	-	Homo sapiens
37	-	-	Mus musculus

pH Optimum

pH Optimum Minimum	pH Optimum Maximum	Comment	Organism
7	-	-	Homo sapiens
7	-	-	Mus musculus

General Information

General Information	Comment	Organism
additional information	isozyme PARN contains a characteristic nuclear localisation signal (NLS, residues 520-540), a carboxy terminal domain (CTD, 540-639) which are not conserved in PNLDC1 and additional regions, which are absent in PNLDC1. The RRM domain of PARN (445-520) is partially conserved in PNLDC1. HsPNLDC1 active site model, overview. RNA-binding sites of HsPNLDC1, comparison to HsPARN revealing similarities in the spatial arrangement of the catalytic DEDDh-motif and other RNA-interacting residues	Homo sapiens
physiological function	PNLDC1 is a deadenylase that is excluded from the nucleus and most likely, its function occurs mainly in the endoplasmic reticulum	Homo sapiens
physiological function	PNLDC1 is a deadenylase that is excluded from the nucleus and most likely, its function occurs mainly in the endoplasmic reticulum. Pnldc1 is present in early mouse development	Mus musculus