Reviewed, UniProtKB/Swiss-Prot Q13247 (SFRS6_HUMAN)

Names and origin

Protein names

Recommended name:
    Splicing factor, arginine/serine-rich 6
Alternative name(s):
    Pre-mRNA-splicing factor SRP55

Gene names

Name:	SFRS6
Synonyms:	SRP55

Organism

Homo sapiens (Human) [Complete proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	344 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Plays a role in constitutive splicing and can modulate the selection of alternative splice sites.
Subunit structure	Binds SFRS12.
Subcellular location	Nucleus.
Post-translational modification	Extensively phosphorylated on serine residues in the RS domain By similarity.
Sequence similarities	Belongs to the splicing factor SR family. Contains 2 RRM (RNA recognition motif) domains.

Ontologies

Keywords
Biological process	mRNA processing mRNA splicing
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Repeat
Ligand	RNA-binding
PTM	Phosphoprotein
Technical term	Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	mRNA splice site selection Ref.1 Traceable author statement. Source: ProtInc
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW nucleotide binding Inferred from electronic annotation. Source: InterPro protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
YWHAQ	P27348	1	EBI-745230,EBI-359854

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform SRP55-1 (identifier: Q13247-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform SRP55-2 (identifier: Q13247-2)

The sequence of this isoform differs from the canonical sequence as follows:
     86-135: SGGGGYSSRR...LKDFMRQAGE → MTNGAEAVST...EAMTTAAFCH
     136-344: Missing.

Isoform SRP55-3 (identifier: Q13247-3)

The sequence of this isoform differs from the canonical sequence as follows:
     313-344: RSVSPPPKRATSRSRSRSRSKSRSRSRSSSRD → LKLGARFMSQQGTESLYSLASSC

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 344	344	Splicing factor, arginine/serine-rich 6		PRO_0000081930
Regions
	Domain	1 – 72	72	RRM 1
	Domain	110 – 183	74	RRM 2
	Compositional bias	87 – 90	4	Gly-rich (hinge region)
	Compositional bias	184 – 343	160	Arg/Ser-rich (RS domain)
Amino acid modifications
	Modified residue	45	1	Phosphoserine Ref.7
	Modified residue	259	1	Phosphoserine Ref.7
	Modified residue	297	1	Phosphoserine Ref.7 Ref.11
	Modified residue	299	1	Phosphoserine Ref.7 Ref.11
	Modified residue	301	1	Phosphoserine Ref.7 Ref.6
	Modified residue	303	1	Phosphoserine Ref.7 Ref.11 Ref.8 Ref.9 Ref.10
	Modified residue	314	1	Phosphoserine Ref.7 Ref.11 Ref.6 Ref.9
	Modified residue	316	1	Phosphoserine Ref.7 Ref.11 Ref.6 Ref.9
Natural variations
	Alternative sequence	86 – 135	50	SGGGG…RQAGE → MTNGAEAVSTEAKMTAFPDW PWLFHTLCDPCPMTLWLTLP EAMTTAAFCH in isoform SRP55-2.		VSP_005869
	Alternative sequence	136 – 344	209	Missing in isoform SRP55-2.		VSP_005870
	Alternative sequence	313 – 344	32	RSVSP…SSSRD → LKLGARFMSQQGTESLYSLA SSC in isoform SRP55-3.		VSP_005871
	Natural variant	145	1	R → Q in a colorectal cancer sample; somatic mutation. Ref.13		VAR_035489
Experimental info
	Sequence conflict	64	1	R → H in AAA93073. Ref.1
	Sequence conflict	64	1	R → H in AAA93071. Ref.1
	Sequence conflict	64	1	R → H in AAA93072. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform SRP55-1 [UniParc]. Last modified May 15, 2002. Version 2. Checksum: 72305506CE948B94	FASTA	344	39,587
	10 20 30 40 50 60 MPRVYIGRLS YNVREKDIQR FFSGYGRLLE VDLKNGYGFV EFEDSRDADD AVYELNGKEL 70 80 90 100 110 120 CGERVIVEHA RGPRRDRDGY SYGSRSGGGG YSSRRTSGRD KYGPPVRTEY RLIVENLSSR 130 140 150 160 170 180 CSWQDLKDFM RQAGEVTYAD AHKERTNEGV IEFRSYSDMK RALDKLDGTE INGRNIRLIE 190 200 210 220 230 240 DKPRTSHRRS YSGSRSRSRS RRRSRSRSRR SSRSRSRSIS KSRSRSRSRS KGRSRSRSKG 250 260 270 280 290 300 RKSRSKSKSK PKSDRGSHSH SRSRSKDEYE KSRSRSRSRS PKENGKGDIK SKSRSRSQSR 310 320 330 340 SNSPLPVPPS KARSVSPPPK RATSRSRSRS RSKSRSRSRS SSRD
	Isoform SRP55-2. Checksum: 2D03ECF8A6F25E19	FASTA	135	15,498
	10 20 30 40 50 60 MPRVYIGRLS YNVREKDIQR FFSGYGRLLE VDLKNGYGFV EFEDSRDADD AVYELNGKEL 70 80 90 100 110 120 CGERVIVEHA RGPRRDRDGY SYGSRMTNGA EAVSTEAKMT AFPDWPWLFH TLCDPCPMTL 130 WLTLPEAMTT AAFCH
	Isoform SRP55-3. Checksum: 396E9091AD0B7DD1	FASTA	335	38,419
	10 20 30 40 50 60 MPRVYIGRLS YNVREKDIQR FFSGYGRLLE VDLKNGYGFV EFEDSRDADD AVYELNGKEL 70 80 90 100 110 120 CGERVIVEHA RGPRRDRDGY SYGSRSGGGG YSSRRTSGRD KYGPPVRTEY RLIVENLSSR 130 140 150 160 170 180 CSWQDLKDFM RQAGEVTYAD AHKERTNEGV IEFRSYSDMK RALDKLDGTE INGRNIRLIE 190 200 210 220 230 240 DKPRTSHRRS YSGSRSRSRS RRRSRSRSRR SSRSRSRSIS KSRSRSRSRS KGRSRSRSKG 250 260 270 280 290 300 RKSRSKSKSK PKSDRGSHSH SRSRSKDEYE KSRSRSRSRS PKENGKGDIK SKSRSRSQSR 310 320 330 SNSPLPVPPS KALKLGARFM SQQGTESLYS LASSC

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Identification and characterization of three members of the human SR family of pre-mRNA splicing factors." Screaton G.R., Caceres J.F., Mayeda A., Bell M.V., Plebanski M., Jackson D.G., Bell J.I., Krainer A.R. EMBO J. 14:4336-4349(1995) [PubMed: 7556075] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS SRP55-1; SRP55-2 AND SRP55-3). Tissue: Colon.
[2]	"The DNA sequence and comparative analysis of human chromosome 20." Deloukas P., Matthews L.H., Ashurst J.L., Burton J., Gilbert J.G.R., Jones M., Stavrides G., Almeida J.P., Babbage A.K., Bagguley C.L., Bailey J., Barlow K.F., Bates K.N., Beard L.M., Beare D.M., Beasley O.P., Bird C.P., Blakey S.E. , Bridgeman A.M., Brown A.J., Buck D., Burrill W.D., Butler A.P., Carder C., Carter N.P., Chapman J.C., Clamp M., Clark G., Clark L.N., Clark S.Y., Clee C.M., Clegg S., Cobley V.E., Collier R.E., Connor R.E., Corby N.R., Coulson A., Coville G.J., Deadman R., Dhami P.D., Dunn M., Ellington A.G., Frankland J.A., Fraser A., French L., Garner P., Grafham D.V., Griffiths C., Griffiths M.N.D., Gwilliam R., Hall R.E., Hammond S., Harley J.L., Heath P.D., Ho S., Holden J.L., Howden P.J., Huckle E., Hunt A.R., Hunt S.E., Jekosch K., Johnson C.M., Johnson D., Kay M.P., Kimberley A.M., King A., Knights A., Laird G.K., Lawlor S., Lehvaeslaiho M.H., Leversha M.A., Lloyd C., Lloyd D.M., Lovell J.D., Marsh V.L., Martin S.L., McConnachie L.J., McLay K., McMurray A.A., Milne S.A., Mistry D., Moore M.J.F., Mullikin J.C., Nickerson T., Oliver K., Parker A., Patel R., Pearce T.A.V., Peck A.I., Phillimore B.J.C.T., Prathalingam S.R., Plumb R.W., Ramsay H., Rice C.M., Ross M.T., Scott C.E., Sehra H.K., Shownkeen R., Sims S., Skuce C.D., Smith M.L., Soderlund C., Steward C.A., Sulston J.E., Swann R.M., Sycamore N., Taylor R., Tee L., Thomas D.W., Thorpe A., Tracey A., Tromans A.C., Vaudin M., Wall M., Wallis J.M., Whitehead S.L., Whittaker P., Willey D.L., Williams L., Williams S.A., Wilming L., Wray P.W., Hubbard T., Durbin R.M., Bentley D.R., Beck S., Rogers J. Nature 414:865-871(2001) [PubMed: 11780052] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[3]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM SRP55-1). Tissue: Placenta.
[4]	"SR proteins: a conserved family of pre-mRNA splicing factors." Zahler A.M., Lane W.S., Stolk J.A., Roth M.B. Genes Dev. 6:837-847(1992) [PubMed: 1577277] [Abstract] Cited for: PROTEIN SEQUENCE OF 21-27 AND 47-55.
[5]	"Identification and characterization of a novel serine-arginine-rich splicing regulatory protein." Barnard D.C., Patton J.G. Mol. Cell. Biol. 20:3049-3057(2000) [PubMed: 10757789] [Abstract] Cited for: INTERACTION WITH SFRS12.
[6]	"Large-scale characterization of HeLa cell nuclear phosphoproteins." Beausoleil S.A., Jedrychowski M., Schwartz D., Elias J.E., Villen J., Li J., Cohn M.A., Cantley L.C., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 101:12130-12135(2004) [PubMed: 15302935] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-301; SER-314 AND SER-316, MASS SPECTROMETRY. Tissue: Epithelium.
[7]	"Global, in vivo, and site-specific phosphorylation dynamics in signaling networks." Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M. Cell 127:635-648(2006) [PubMed: 17081983] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-45; SER-259; SER-297; SER-299; SER-301; SER-303; SER-314 AND SER-316, MASS SPECTROMETRY. Tissue: Epithelium.
[8]	"Improved titanium dioxide enrichment of phosphopeptides from HeLa cells and high confident phosphopeptide identification by cross-validation of MS/MS and MS/MS/MS spectra." Yu L.-R., Zhu Z., Chan K.C., Issaq H.J., Dimitrov D.S., Veenstra T.D. J. Proteome Res. 6:4150-4162(2007) [PubMed: 17924679] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-303, MASS SPECTROMETRY. Tissue: Epithelium.
[9]	"Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry." Molina H., Horn D.M., Tang N., Mathivanan S., Pandey A. Proc. Natl. Acad. Sci. U.S.A. 104:2199-2204(2007) [PubMed: 17287340] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-303; SER-314 AND SER-316, MASS SPECTROMETRY.
[10]	"Automated phosphoproteome analysis for cultured cancer cells by two-dimensional nanoLC-MS using a calcined titania/C18 biphasic column." Imami K., Sugiyama N., Kyono Y., Tomita M., Ishihama Y. Anal. Sci. 24:161-166(2008) [PubMed: 18187866] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-303, MASS SPECTROMETRY.
[11]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed: 18669648] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-297; SER-299; SER-303; SER-314 AND SER-316, MASS SPECTROMETRY.
[12]	Colinge J., Superti-Furga G., Bennett K.L. Submitted (OCT-2008) to UniProtKB Cited for: IDENTIFICATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY.
[13]	"The consensus coding sequences of human breast and colorectal cancers." Sjoeblom T., Jones S., Wood L.D., Parsons D.W., Lin J., Barber T.D., Mandelker D., Leary R.J., Ptak J., Silliman N., Szabo S., Buckhaults P., Farrell C., Meeh P., Markowitz S.D., Willis J., Dawson D., Willson J.K.V. , Gazdar A.F., Hartigan J., Wu L., Liu C., Parmigiani G., Park B.H., Bachman K.E., Papadopoulos N., Vogelstein B., Kinzler K.W., Velculescu V.E. Science 314:268-274(2006) [PubMed: 16959974] [Abstract] Cited for: VARIANT [LARGE SCALE ANALYSIS] GLN-145.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	U30883 mRNA. Translation: AAA93073.1. U30828 mRNA. Translation: AAA93071.1. U30829 mRNA. Translation: AAA93072.1. AL031681 Genomic DNA. Translation: CAB43960.1. BC006832 mRNA. Translation: AAH06832.1.
IPI	IPI00012345. IPI00018203. IPI00215879.
PIR	S59043.
RefSeq	NP_006266.2.
UniGene	Hs.6891
3D structure databases
HSSP	HSSP built from PDB template 1HD1 based on UniProtKB Q14103.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q13247. 5 interactions.
PTM databases
PhosphoSite	Q13247.
Proteomic databases
PRIDE	Q13247.
Genome annotation databases
Ensembl	ENSG00000124193. Homo sapiens. [Contig view]
GeneID	6431.
KEGG	hsa:6431.
UCSC	uc002xkj.1. human.
Organism-specific databases
GeneCards	GC20P041519.
H-InvDB	HIX0015826.
HGNC	HGNC:10788. SFRS6.
MIM	601944. gene.
PharmGKB	PA35704.
GenAtlas	Search...
Phylogenomic databases
HOGENOM	Q13247.
HOVERGEN	Q13247.
OMA	Q13247. XGGGGYS.
Enzyme and pathway databases
Reactome	REACT_125. Processing of Capped Intron-Containing Pre-mRNA. REACT_1788. Transcription. REACT_6167. Influenza Infection. REACT_71. Gene Expression.
Gene expression databases
ArrayExpress	Q13247.
Bgee	Q13247.
CleanEx	HS_SFRS6.
GermOnline	ENSG00000124193. Homo sapiens.
Family and domain databases
InterPro	IPR012677. a_b_plait_nuc_bd. IPR000504. RRM_RNP1. [Graphical view]
Gene3D	G3DSA:3.30.70.330. a_b_plait_nuc_bd. 2 hits.
Pfam	PF00076. RRM_1. 2 hits. [Graphical view]
SMART	SM00360. RRM. 2 hits. [Graphical view]
PROSITE	PS50102. RRM. 2 hits. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	24979.
SOURCE	Search...

Entry information

Entry name

SFRS6_HUMAN

Accession

Primary (citable) accession number: Q13247
Secondary accession number(s): Q13244 , Q13245, Q96J06, Q9UJB8, Q9Y3N7

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	May 15, 2002
Last modified:	July 7, 2009
This is version 102 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)