Pathways of nucleic acid metabolism and innate immune sensing (Homo sapiens)

From WikiPathways

Description

Quality Tags

Ontology Terms

Bibliography

1. Cho DS, Yang W, Lee JT, Shiekhattar R, Murray JM, Nishikura K; ''Requirement of dimerization for RNA editing activity of adenosine deaminases acting on RNA.''; J Biol Chem, 2003 PubMed Europe PMC Scholia
2. Patterson JB, Samuel CE; ''''; , PubMed Europe PMC Scholia
3. Deininger PL, Batzer MA; ''Mammalian retroelements.''; Genome Res, 2002 PubMed Europe PMC Scholia

History

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Compare	Revision	Action	Time	User	Comment
	128779	view	23:35, 21 February 2024	Eweitz	Use standard shape for clickable pathways
	128778	view	23:32, 21 February 2024	Eweitz	Remove unnecessary background color, standardize case
	123423	view	06:18, 26 July 2022	Egonw	Made a pathway clickable
	119081	view	08:58, 16 June 2021	DeSl	Updated sNTP pools ID
	119080	view	05:36, 16 June 2021	Egonw	Not a mim-conversion
	119064	view	07:46, 14 June 2021	DeSl	Converted last DNA and retroelement to RNA DataNodes
	119063	view	07:44, 14 June 2021	DeSl	Converted some more Metabolites to RNA
	119062	view	07:42, 14 June 2021	DeSl	Updated some metabolites to RNA
	118976	view	05:14, 6 June 2021	Egonw	dsRna is Rna
	110737	view	09:55, 30 May 2020	Egonw	Not a mim-conversion
	110687	view	13:32, 28 May 2020	Laurent	Updated types of data nodes where type was missing
	107300	view	12:13, 19 September 2019	DeSl	Modified description
	107299	view	12:12, 19 September 2019	DeSl	Added missing IDs
	107298	view	12:06, 19 September 2019	DeSl	Ontology Term : 'altered DNA repair pathway' added !
	107297	view	12:06, 19 September 2019	DeSl	Ontology Term : 'signaling pathway in the innate immune response' added !
	107296	view	12:05, 19 September 2019	DeSl	Modified description
	107295	view	12:00, 19 September 2019	DeSl	Added rRNA part
	107294	view	11:50, 19 September 2019	DeSl	Added background colours, added Lysosome
	107293	view	11:43, 19 September 2019	DeSl	Added IFNB and ISGs
	107291	view	11:37, 19 September 2019	DeSl	Added phosphorylation of the transcription factor interferon regulatory factor 3 (IRF3)
	107290	view	11:33, 19 September 2019	DeSl	Completed right hand side of PW
	107286	view	08:35, 19 September 2019	DeSl	Added more details on dsRNA interaction with MDA5
	107183	view	14:27, 17 September 2019	MaintBot	ChEBI identifier normalization
	106678	view	15:09, 16 September 2019	DeSl	Added more details on NER and RER
	106677	view	14:35, 16 September 2019	DeSl	New pathway

External references

DataNodes

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Name	Type	Database reference	Comment
DNA replication	Pathway	WP466 (WikiPathways)
DNA		Q7430 (Wikidata)
IRF3	Protein	Q14653 (Uniprot-TrEMBL)
MAVS	Protein	Q7Z434 (Uniprot-TrEMBL)
MDA5	Protein	Q9BYX4 (Uniprot-TrEMBL)
Nucleotide excision repair	Pathway	WP1980 (WikiPathways)	The presence of ribonucleotides in genomic DNA enhances photodimerization of adjacent pyrimidines, which are repaired by nucleotide excision repair
RIG-I	Protein
RNase H2 subunit A	Protein	O75792 (Uniprot-TrEMBL)	Catalytic subunit
RNase H2 subunit B	Protein	Q5TBB1 (Uniprot-TrEMBL)	Noncatalytic subunit
RNase H2 subunit C	Protein		Noncatalytic subunit
Retroelement		Q1473344 (Wikidata)
SAMHD1	Protein	Q9Y3Z3 (Uniprot-TrEMBL)
STING	Protein	Q86WV6 (Uniprot-TrEMBL)
TMEM173	GeneProduct		cGAS which signals via STING (encoded by TMEM173)
TREX1	Protein	Q9NSU2 (Uniprot-TrEMBL)	Cytosolic deoxyribonuclease anchored in the outer nuclear membrane. A lack of TREX1 causes DNA accumulation, both within the nucleus and the cytosol.
cDNA		Q283478 (Wikidata)	Single-stranded complementary DNA synthesized from an RNA template by the action of RNA-dependent DNA polymerase.
cGAS	Protein	Q8N884 (Uniprot-TrEMBL)	DNA sensor
dN	Metabolite	18274 (ChEBI)
dNTP pools	Metabolite	46149 (ChEBI)
dsDNA		Q55978910 (Wikidata)
mRNA		Q188928 (Wikidata)
ssDNA		Q10906438 (Wikidata)	single-stranded DNA

Annotated Interactions

Source	Target	Type	Database reference	Comment
dNTP pools	dN	mim-conversion	46149 (Rhea)	SAMHD1 degrades deoxynucleoside triphosphates (dNTP)