EuRBPDB

Description

Ensembl ID: ENSG00000100038 (Gene tree)
Gene ID: 8940
Gene Symbol: TOP3B
Alias: N
Full Name: DNA topoisomerase III beta
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Minus strand
Length: 25,819 bases
Position: chr22:21,957,025-21,982,843
Accession: 11993
RBP type: non-canonical RBP
Summary: This gene encodes a DNA topoisomerase, an enzyme that controls and alters the topologic states of DNA during transcription. This enzyme catalyzes the transient breaking and rejoining of a single strand of DNA which allows the strands to pass through one another, thus relaxing the supercoils and altering the topology of DNA. The enzyme interacts with DNA helicase SGS1 and plays a role in DNA recombination, cellular aging and maintenance of genome stability. Low expression of this gene may be related to higher survival rates in breast cancer patients. This gene has a pseudogene on chromosome 22. Alternate splicing results in multiple transcript variants. Additional alternatively spliced transcript variants of this gene have been described, but their full-length nature is not known. [provided by RefSeq, Aug 2013]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
22681889	The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts	4SURIC & HEK293	2012 May	Baltz AG	DOI: 10.1016/j.molcel.2012.05.021
29431736	Capturing the interactome of newly transcribed RNA	RIC & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
22658674	Insights into RNA biology from an atlas of mammalian mRNA-binding proteins	RIC & Hela	2012 May 31	Castello A	DOI: 10.1016/j.cell.2012.04.031
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & Hela	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
27453046	Comprehensive Identification of RNA-Binding Domains in Human Cells	RIC & Hela	2016 Aug 18	Castello A	DOI: 10.1016/j.molcel.2016.06.029

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000470338	TOP3B-215	624	-	-	- (aa)	-	-
ENST00000489581	TOP3B-217	789	-	-	- (aa)	-	-
ENST00000430142	TOP3B-204	582	-	ENSP00000414538	121 (aa)	-	C9JKE2
ENST00000457270	TOP3B-214	2956	-	ENSP00000408282	525 (aa)	-	H0Y6W0
ENST00000437929	TOP3B-208	550	-	ENSP00000402622	122 (aa)	-	C9JT00
ENST00000398793	TOP3B-202	3107	XM_005261811	ENSP00000381773	862 (aa)	XP_005261868	O95985
ENST00000436282	TOP3B-206	2890	-	ENSP00000416451	168 (aa)	-	H7C4B0
ENST00000424393	TOP3B-203	824	-	ENSP00000390977	246 (aa)	-	C9JEI7
ENST00000434517	TOP3B-205	736	-	ENSP00000390824	21 (aa)	-	C9JF56
ENST00000456075	TOP3B-212	561	-	ENSP00000391857	61 (aa)	-	C9J9X4
ENST00000457179	TOP3B-213	3061	-	ENSP00000397221	129 (aa)	-	F2Z2A5
ENST00000487485	TOP3B-216	725	-	-	- (aa)	-	-
ENST00000449704	TOP3B-211	543	-	ENSP00000404600	60 (aa)	-	C9JEQ1
ENST00000357179	TOP3B-201	2863	XM_011530482	ENSP00000349705	862 (aa)	XP_011528784	O95985
ENST00000444502	TOP3B-210	4163	-	ENSP00000392480	129 (aa)	-	F2Z2A5
ENST00000437103	TOP3B-207	571	-	ENSP00000387554	42 (aa)	-	C9JTQ7
ENST00000442653	TOP3B-209	400	-	ENSP00000390209	46 (aa)	-	C9JHR0

Gene Model

Pathways

Pathway ID	Pathway Name	Source
hsa03440	Homologous recombination	KEGG
hsa03460	Fanconi anemia pathway	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000100038	Myocardial Infarction	3.2441856E-004	-

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000100038	rs74573604	22	21961175	G	Macrophage inflammatory protein 1b levels	27989323	[0.14-0.33] SD units increase	0.2338	EFO_0008219

Protein-Protein Interaction (PPI)

* RBP PPI network refers to all genes directly bind to RBP

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000100038	TOP3B	99	68.980	FBgn0026015	Top3beta	100	56.349	Drosophila_melanogaster
ENSG00000100038	TOP3B	100	100.000	ENSMUSG00000022779	Top3b	100	95.763	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000793	condensed chromosome	-	IEA	Component
GO:0003677	DNA binding	-	IEA	Function
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0003916	DNA topoisomerase activity	21873635.	IBA	Function
GO:0003917	DNA topoisomerase type I activity	-	IEA	Function
GO:0005515	protein binding	25416956.28176834.	IPI	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0006265	DNA topological change	21873635.	IBA	Process
GO:0007059	chromosome segregation	-	IEA	Process