EuRBPDB

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000106028 (Gene tree)
Gene ID: 6742
Gene Symbol: SSBP1
Alias: SSBP|mtSSB
Full Name: single stranded DNA binding protein 1
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 49,602 bases
Position: chr7:141,738,321-141,787,922
Accession: 11317
RBP type: non-canonical RBP
Summary: SSBP1 is a housekeeping gene involved in mitochondrial biogenesis (Tiranti et al., 1995 [PubMed 7789991]). It is also a subunit of a single-stranded DNA (ssDNA)-binding complex involved in the maintenance of genome stability (Huang et al., 2009) [PubMed 19683501].[supplied by OMIM, Feb 2010]

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
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
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
30352994	Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome capture	RIC & Jurkat	2018 Oct 23	Perez-Perri JI	DOI:10.1038/s41467-018-06557-8

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
28074284	High-affinity RNA binding by a hyperthermophilic single-stranded DNA-binding protein.	Extremophiles	2017 Mar	Morten MJ	doi: 10.1007/s00792-016-0910-2
21714529	Quantitative analysis of microRNA in blood serum with protein-facilitated affinity capillary electrophoresis.	Anal Chem	2011 Aug 15	Khan N	doi: 10.1021/ac2016213
24026701	Quantitative analysis of microRNA in blood serum with protein-facilitated affinity capillary electrophoresis.	Methods Mol Biol	2013	Berezovski MV	doi: 10.1007/978-1-62703-535-4_20.
12083374	HnRNP-A1 binds directly to double-stranded DNA in vitro within a 36 bp sequence.	Mol Cell Biochem	2002 Apr	Donev RM	-
15133096	Stress-responsive proteins are upregulated in Streptococcus mutans during acid tolerance.	Microbiology	2004 May	Len AC	-
3037524	RepA and DnaA proteins are required for initiation of R1 plasmid replication in vitro and interact with the oriR sequence.	Proc Natl Acad Sci U S A	1987 Jul	Masai H	-
19624753	DNA conformation-dependent activities of human mitochondrial RNA polymerase.	Genes Cells	2009 Aug	Fukuoh A	doi: 10.1111/j.1365-2443.2009.01328.x
22207204	The interface of transcription and DNA replication in the mitochondria.	Biochim Biophys Acta	2012 Sep-Oct	Kasiviswanathan R	doi: 10.1016/j.bbagrm.2011.12.005
24228219	Novel group of podovirus infecting the marine bacterium Alteromonas macleodii.	Bacteriophage	2013 Apr 1	Garcia-Heredia I	-
24130435	Replicating animal mitochondrial DNA.	Genet Mol Biol	2013 Sep	McKinney EA	doi: 10.1590/S1415-47572013000300002
30715486	Mitochondrial RNA granules are critically dependent on mtDNA replication factors Twinkle and mtSSB.	Nucleic Acids Res	2019 Apr 23	Hensen F	doi: 10.1093/nar/gkz047.
6139375	DNA-dependent nucleoside 5'-triphosphatase activity of the gene 4 protein of bacteriophage T7.	J Biol Chem	1983 Nov 25	Matson SW	-
2663866	Purification and characterization of the coliphage N4-coded single-stranded DNA binding protein.	J Biol Chem	1989 Jul 25	Lindberg G	-
2459106	Stabilization of discrete mRNA breakdown products in ams pnp rnb multiple mutants of Escherichia coli K-12.	J Bacteriol	1988 Oct	Arraiano CM	-
15532570	Single-stranded DNA-binding protein facilitates gel-free analysis of polymerase chain reaction products in capillary electrophoresis.	J Chromatogr A	2004 Oct 8	Drabovich A	-
14872062	Physical and functional interaction of the archaeal single-stranded DNA-binding protein SSB with RNA polymerase.	Nucleic Acids Res	2004 Feb 10	Richard DJ	-
14583040	Using DNA-binding proteins as an analytical tool.	J Am Chem Soc	2003 Nov 5	Berezovski M	-
17975029	Development of a novel one-tube isothermal reverse transcription thermophilic helicase-dependent amplification platform for rapid RNA detection.	J Mol Diagn	2007 Nov	Goldmeyer J	-
19951946	Nuclear respiratory factor 2 induces the expression of many but not all human proteins acting in mitochondrial DNA transcription and replication.	J Biol Chem	2010 Feb 5	Bruni F	doi: 10.1074/jbc.M109.044305

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000498107	SSBP1-214	636	-	ENSP00000419541	148 (aa)	-	Q04837
ENST00000461433	SSBP1-202	1694	-	-	- (aa)	-	-
ENST00000465582	SSBP1-205	731	-	ENSP00000420485	148 (aa)	-	Q04837
ENST00000465167	SSBP1-204	517	-	-	- (aa)	-	-
ENST00000473783	SSBP1-209	470	-	ENSP00000418181	28 (aa)	-	C9J8J0
ENST00000469123	SSBP1-208	662	NR_046269	-	- (aa)	-	-
ENST00000612337	SSBP1-215	884	-	ENSP00000480488	148 (aa)	-	Q04837
ENST00000463093	SSBP1-203	600	XM_005250048	ENSP00000419579	121 (aa)	XP_005250105	C9K0U8
ENST00000496622	SSBP1-213	2620	-	-	- (aa)	-	-
ENST00000489378	SSBP1-212	1434	-	-	- (aa)	-	-
ENST00000265304	SSBP1-201	687	-	ENSP00000265304	148 (aa)	-	Q04837
ENST00000467681	SSBP1-206	630	-	ENSP00000418068	135 (aa)	-	E7EUY5
ENST00000481508	SSBP1-210	989	-	ENSP00000419665	148 (aa)	-	Q04837
ENST00000468267	SSBP1-207	800	-	-	- (aa)	-	-
ENST00000484178	SSBP1-211	676	-	ENSP00000419388	148 (aa)	-	Q04837

Gene Model

Click here to download ENSG00000106028's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03030	DNA replication	KEGG
hsa03430	Mismatch repair	KEGG
hsa03440	Homologous recombination	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000106028	Hemoglobin A, Glycosylated	9.71967384863145E-8	17903298
ENSG00000106028	Hemoglobin A, Glycosylated	4.90417278895819E-7	17903298

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000106028	rs76939696	7	141770110	T	Low white blood cell count (conditioned on rs2814778)	29596498	[3.06-4.08]	3.5701	EFO_0004308

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000106028's network

* 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
ENSG00000106028	SSBP1	79	30.556	WBGene00019800	mtss-1	59	30.556	Caenorhabditis_elegans
ENSG00000106028	SSBP1	100	75.556	ENSDARG00000039350	ssbp1	100	72.789	Danio_rerio
ENSG00000106028	SSBP1	81	44.545	FBgn0010438	mtSSB	92	41.135	Drosophila_melanogaster
ENSG00000106028	SSBP1	100	91.852	ENSMUSG00000029911	Ssbp1	99	92.517	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0003682	chromatin binding	18063578.	IDA	Function
GO:0003697	single-stranded DNA binding	21873635.	IBA	Function
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0005515	protein binding	22190034.	IPI	Function
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005739	mitochondrion	21873635.	IBA	Component
GO:0005739	mitochondrion	-	IDA	Component
GO:0005759	mitochondrial matrix	-	TAS	Component
GO:0006264	mitochondrial DNA replication	21873635.	IBA	Process
GO:0007005	mitochondrion organization	-	TAS	Process
GO:0009295	nucleoid	21873635.	IBA	Component
GO:0042645	mitochondrial nucleoid	21873635.	IBA	Component
GO:0042645	mitochondrial nucleoid	18063578.	IDA	Component
GO:0051096	positive regulation of helicase activity	21873635.	IBA	Process
GO:0051096	positive regulation of helicase activity	12975372.	IDA	Process
GO:0070062	extracellular exosome	20458337.	HDA	Component
GO:0070584	mitochondrion morphogenesis	-	IEA	Process