RBPWorld - a comprehensive database of RNA Binding Proteins

Functions and Diseases

RBP Type	Non-canonical_RBPs
Diseases	CancerCHIKVFlavivirusesHIVIAVRVSARS-COV-2SINVDengueZika
Drug	Drug
Main interacting RNAs	mRNA
Moonlighting functions	Kinase
Localizations	Stress granucle
BulkPerturb-seq	N.A.

Description

Ensembl ID	ENSG00000253729	Gene ID	5591	Accession	9413
Symbol	PRKDC	Alias	HYRC;p350;DNAPK;DNPK1;HYRC1;IMD26;XRCC7;DNAPKc;DNA-PKC;DNA-PKcs	Full Name	protein kinase, DNA-activated, catalytic subunit
Status	Confidence	Length	187068 bases	Strand	Minus strand
Position	8 : 47773111 - 47960178	RNA binding domain	N.A.
Summary	This gene encodes the catalytic subunit of the DNA-dependent protein kinase (DNA-PK). It functions with the Ku70/Ku80 heterodimer protein in DNA double strand break repair and recombination. The protein encoded is a member of the PI3/PI4-kinase family.[provided by RefSeq, Jul 2010]

Protein	Domain	Pfam ID	E-value	Domain number
No data available in table

RNA binding proteomes (RBPomes)

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Pubmed ID	Full Name	Cell	Author	Time	Doi
22681889	RIC_PMID22681889_Hs_HEK293	HEK293	Alexander G Baltz	2012 Jun 8	doi: 10.1016/j.molcel.2012.05.021
25173706	Pclap_PMID25173706_Hs_HEK293	HEK293	Katharina Kramer	2014 Oct;11	doi: 10.1038/nmeth.3092.?Epub 2014 Aug 31
25843628	ChIRP.MS_PMID25843628_Hela_human	Hela	Ci Chu	2015 Apr 9	doi: 10.1016/j.cell.2015.03.025.?Epub 2015 Apr 2
26632259	RIC_PMID26632259._Hs_HuH7	HuH7	Benedikt M Beckmann	2015 Dec 3	doi: 10.1038/ncomms10127.
27040163	serIC_PMID27040163_Hs_K562	K562	Thomas Conrad?	2016 Apr 4	doi: 10.1038/ncomms11212
27040163	serIC_PMID27040163_Hs_K562.1	K562	Thomas Conrad?	2016 Apr 4	doi: 10.1038/ncomms11212
29431736	RICK_PMID29431736_Hela_human	Hela	Xichen Bao	2018 Mar	doi: 10.1038/nmeth.4595.?Epub 2018 Feb 12
29431736	RICK_PMID29431736_Hs_HeLa.RICK	HeLa	Xichen Bao	2018 Mar	doi: 10.1038/nmeth.4595.?Epub 2018 Feb 12
29636419	CARIC_PMID29636419_Hela_human	Hela	Xichen Bao	2018 Apr 24	doi: 10.1073/pnas.1718406115.?Epub 2018 Apr 10
29636419	CARIC_PMID29636419_Hs_CARIC		Rongbing Huang	2018 Apr 24	doi: 10.1073/pnas.1718406115

Showing 1 to 10 of 32 entries

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Literatures on RNA binding capacity

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Pubmed ID	Title	Author	Time	Journal
33364834	Circ-PRKDC Facilitates the Progression of Colorectal Cancer Through miR-198/DDR1 Regulatory Axis.	Guixiang Wang	2020-01-01	Cancer management and research
35468873	PRKDC promotes hepatitis B virus transcription through enhancing the binding of RNA Pol II to cccDNA.	Yao Fan	2022-04-25	Cell death & disease
37035744	Dynamic of centromere associated RNAs and the centromere loading of DNA repair proteins in growing oocytes.	Lin-Li Yang	2023-01-01	Frontiers in genetics

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Transcripts

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Name	Transcript ID	bp	Protein	Translation ID
PRKDC-201	ENST00000314191	13459	4128aa	ENSP00000313420
PRKDC-202	ENST00000338368	12784	4097aa	ENSP00000345182
PRKDC-203	ENST00000432581	583	No protein	-
PRKDC-204	ENST00000521331	1087	No protein	-
PRKDC-205	ENST00000535375	464	No protein	-
PRKDC-206	ENST00000536429	659	90aa	ENSP00000442177
PRKDC-207	ENST00000536483	834	No protein	-
PRKDC-208	ENST00000536710	554	No protein	-
PRKDC-209	ENST00000540819	537	70aa	ENSP00000441157
PRKDC-210	ENST00000541488	719	No protein	-

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Gene Model

Click here to download ENSG00000253729's gene model file

Phenotypes

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ensgID	Trait	pValue	Pubmed ID
22551	Respiratory Function Tests	6.6510000E-005	-
25082	Body Weight	9.8820000E-005	-

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GWAS

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ensgID	SNP	Chromosome	Position	Trait	PubmedID	Or or BEAT	EFO ID
ENSG00000253729	rs7003908	8	47858141	Insomnia	29520036	1.5625	EFO_0004698
ENSG00000253729	rs4873772	8	47946373	Lobe attachment (rater-scored or self-reported)	29198719		EFO_0007667

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Protein-Protein Interaction (PPI)

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Paralogs

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Ensembl ID	Source				Target
Ensembl ID	Species	Protein ID	Perc_pos	Perc_id	Species	Protein ID	Perc_pos	Perc_id
ENSG00000253729	homo_sapiens	ENSP00000402515	22.5348	10.7348	homo_sapiens	ENSP00000313420	19.9855	9.52035
ENSG00000253729	homo_sapiens	ENSP00000354558	30.561	15.3393	homo_sapiens	ENSP00000313420	18.8711	9.4719
ENSG00000253729	homo_sapiens	ENSP00000343741	40.3555	20.3101	homo_sapiens	ENSP00000313420	25.8479	13.0087
ENSG00000253729	homo_sapiens	ENSP00000501606	33.2461	15.9359	homo_sapiens	ENSP00000313420	24.6124	11.7975
ENSG00000253729	homo_sapiens	ENSP00000394645	30.1317	13.5812	homo_sapiens	ENSP00000313420	28.2703	12.7422

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Orthologs

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Ensembl ID	Source				Target
Ensembl ID	Species	Protein ID	Perc_pos	Perc_id	Species	Protein ID	Perc_pos	Perc_id
ENSG00000253729	homo_sapiens	ENSP00000313420	91.4244	90.4312	nomascus_leucogenys	ENSNLEP00000016119	97.9496	96.8855
ENSG00000253729	homo_sapiens	ENSP00000313420	99.8789	99.6609	pan_paniscus	ENSPPAP00000013799	99.8789	99.6609
ENSG00000253729	homo_sapiens	ENSP00000313420	99.4671	99.0068	pongo_abelii	ENSPPYP00000020829	99.4912	99.0308
ENSG00000253729	homo_sapiens	ENSP00000313420	99.8789	99.5882	pan_troglodytes	ENSPTRP00000045268	99.8789	99.5882
ENSG00000253729	homo_sapiens	ENSP00000313420	84.6415	84.4234	gorilla_gorilla	ENSGGOP00000005945	99.7431	99.4862
ENSG00000253729	homo_sapiens	ENSP00000313420	86.1434	74.8304	ornithorhynchus_anatinus	ENSOANP00000011564	85.9976	74.7038
ENSG00000253729	homo_sapiens	ENSP00000313420	88.1783	76.6231	sarcophilus_harrisii	ENSSHAP00000016491	87.9227	76.401
ENSG00000253729	homo_sapiens	ENSP00000313420	63.469	54.6027	notamacropus_eugenii	ENSMEUP00000014793	63.4998	54.6292
ENSG00000253729	homo_sapiens	ENSP00000313420	79.7723	72.1899	choloepus_hoffmanni	ENSCHOP00000005188	83.5363	75.5961
ENSG00000253729	homo_sapiens	ENSP00000313420	90.189	81.9283	dasypus_novemcinctus	ENSDNOP00000011051	90.2108	81.9481

Showing 1 to 10 of 187 entries

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Gene Ontology

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Go ID	Go term	No. evidence	Entries	Species	Category
GO:0004674	enables protein serine/threonine kinase activity	3	IBA,IDA,TAS	Homo_sapiens(9606)	Function
GO:0006468	involved_in protein phosphorylation	3	IBA,IDA,IMP	Homo_sapiens(9606)	Process
GO:0004672	enables protein kinase activity	2	IDA,IMP	Homo_sapiens(9606)	Function
GO:0005634	is_active_in nucleus	2	IBA,IDA	Homo_sapiens(9606)	Component
GO:0005654	located_in nucleoplasm	2	IDA,TAS	Homo_sapiens(9606)	Component
GO:0006302	involved_in double-strand break repair	2	IBA,IMP	Homo_sapiens(9606)	Process
GO:0006303	involved_in double-strand break repair via nonhomologous end joining	2	NAS,TAS	Homo_sapiens(9606)	Process
GO:0018105	acts_upstream_of_or_within peptidyl-serine phosphorylation	2	IDA	Homo_sapiens(9606)	Process
GO:0000460	involved_in maturation of 5.8S rRNA	1	IDA	Homo_sapiens(9606)	Process
GO:0000723	involved_in telomere maintenance	1	IBA	Homo_sapiens(9606)	Process

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Welcome to

RBP World!

Functions and Diseases

Description

RNA binding domains (RBDs)

RNA binding proteomes (RBPomes)

Literatures on RNA binding capacity

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

Protein-Protein Interaction (PPI)

Paralogs

Orthologs

Gene Ontology

Expression