EuRBPDB

Description

Ensembl ID: ENSG00000169871 (Gene tree)
Gene ID: 81844
Gene Symbol: TRIM56
Alias: RNF109
Full Name: tripartite motif containing 56
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 12,544 bases
Position: chr7:101,085,424-101,097,967
Accession: 19028
RBP type: non-canonical RBP
Summary: (Tripartite Motif Containing 56) is a Protein Coding gene. Among its related pathways are Cytosolic sensors of pathogen-associated DNA and Innate Immune System. Gene Ontology (GO) annotations related to this gene include ubiquitin-protein transferase activity. An important paralog of this gene is TRIM42.

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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
31251739	The E3 ligase TRIM56 is a host restriction factor of Zika virus and depends on its RNA-binding activity but not miRNA regulation, for antiviral function.	PLoS Negl Trop Dis	2019 Jun 28	Yang D	doi: 10.1371/journal.pntd.0007537

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000306085	TRIM56-201	10952	XM_011516589	ENSP00000305161	755 (aa)	XP_011514891	Q9BRZ2
ENST00000467847	TRIM56-203	581	-	ENSP00000486217	65 (aa)	-	A0A0D9SF19
ENST00000487252	TRIM56-204	735	-	-	- (aa)	-	-
ENST00000412507	TRIM56-202	1129	-	ENSP00000404186	305 (aa)	-	C9JI91

Gene Model

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
ENSG00000169871	TRIM56	100	84.615	ENSMUSG00000043279	Trim56	100	86.792	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0004842	ubiquitin-protein transferase activity	-	ISS	Function
GO:0004842	ubiquitin-protein transferase activity	-	TAS	Function
GO:0005737	cytoplasm	-	ISS	Component
GO:0005829	cytosol	-	TAS	Component
GO:0008270	zinc ion binding	-	IEA	Function
GO:0032479	regulation of type I interferon production	-	TAS	Process
GO:0032608	interferon-beta production	-	ISS	Process
GO:0034340	response to type I interferon	-	ISS	Process
GO:0051607	defense response to virus	-	ISS	Process
GO:0070534	protein K63-linked ubiquitination	-	ISS	Process