P62306 (RUXF_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Small nuclear ribonucleoprotein F
Short name=snRNP-F

Alternative name(s):
Sm protein F
Short name=Sm-F
Short name=SmF

Gene names

Name:	SNRPF
Synonyms:	PBSCF

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	86 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5.
Subunit structure	Component of the heptameric ring U7 snRNP complex, or U7 Sm protein core complex, at least composed of LSM10, LSM11, SNRPB, SNRPD3, SNRPE, SNRPF, SNRPG and U7 snRNA. Formation of the U7 snRNP is an ATP-dependent process mediated by a specialized SMN complex containing at least the Sm protein core complex and additionally, the U7-specific LSM10 and LSM11 proteins. Identified in the spliceosome C complex. Component of the U11/U12 snRNPs that are part of the U12-type spliceosome. Ref.7 Ref.8 Ref.9
Subcellular location	Nucleus.
Sequence similarities	Belongs to the snRNP Sm proteins family. SmF/LSm6 subfamily.

Ontologies

Keywords
Biological process	mRNA processing mRNA splicing
Cellular component	Nucleus Spliceosome
Ligand	RNA-binding
Molecular function	Ribonucleoprotein
PTM	Acetylation
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	histone mRNA metabolic process Traceable author statement. Source: Reactome mRNA 3'-end processing Traceable author statement. Source: Reactome ncRNA metabolic process Traceable author statement. Source: Reactome spliceosomal snRNP assembly Traceable author statement. Source: Reactome termination of RNA polymerase II transcription Traceable author statement. Source: Reactome
Cellular_component	U12-type spliceosomal complex Inferred from direct assay Ref.9. Source: UniProtKB U7 snRNP Inferred from direct assay Ref.7. Source: UniProtKB catalytic step 2 spliceosome Inferred from direct assay Ref.8. Source: UniProtKB cytosol Traceable author statement. Source: Reactome nucleoplasm Traceable author statement. Source: Reactome
Molecular_function	RNA binding Inferred from mutant phenotype Ref.1. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Initiator methionine

1

1

Removed Ref.6

Chain

2 – 86

85

Small nuclear ribonucleoprotein F

PRO_0000125536

Amino acid modifications

Modified residue

2

1

N-acetylserine Ref.6

Experimental info

Sequence conflict

86

1

E → D in CAG33032. Ref.2

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

86

Helix Strand Turn

Details...

Helix

7 – 14

8

Beta strand

17 – 23

7

Beta strand

28 – 36

9

Beta strand

42 – 51

10

Beta strand

54 – 64

11

Helix

66 – 68

3

Beta strand

69 – 74

6

Sequences

	Sequence		Length	Mass (Da)
	P62306 [UniParc]. Last modified July 5, 2004. Version 1. Checksum: 416B88D575DAE58A	FASTA	86	9,725
	10 20 30 40 50 60 MSLPLNPKPF LNGLTGKPVM VKLKWGMEYK GYLVSVDGYM NMQLANTEEY IDGALSGHLG 70 80 EVLIRCNNVL YIRGVEEEEE DGEMRE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"snRNP Sm proteins share two evolutionarily conserved sequence motifs which are involved in Sm protein-protein interactions." Hermann H., Fabrizio P., Raker V.A., Foulaki K., Hornig H., Brahms H., Luehrmann R. EMBO J. 14:2076-2088(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Cervix carcinoma.
[2]	"Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)." Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B. Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[3]	"Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S. Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Amygdala.
[4]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	"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] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Colon.
[6]	Bienvenut W.V., Lilla S., von Kriegsheim A., Lempens A., Kolch W. Submitted (DEC-2008) to UniProtKB Cited for: PROTEIN SEQUENCE OF 2-22 AND 66-86, CLEAVAGE OF INITIATOR METHIONINE, ACETYLATION AT SER-2, MASS SPECTROMETRY. Tissue: Ovarian carcinoma.
[7]	"Purified U7 snRNPs lack the Sm proteins D1 and D2 but contain Lsm10, a new 14 kDa Sm D1-like protein." Pillai R.S., Will C.L., Luehrmann R., Schuemperli D., Mueller B. EMBO J. 20:5470-5479(2001) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE U7 SNRNP COMPLEX.
[8]	"Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis." Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J. RNA 8:426-439(2002) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPLICEOSOMAL C COMPLEX.
[9]	"The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome." Will C.L., Schneider C., Hossbach M., Urlaub H., Rauhut R., Elbashir S., Tuschl T., Luehrmann R. RNA 10:929-941(2004) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN A COMPLEX WITH THE U11/U12 SPLICEOSOME, MASS SPECTROMETRY.
[10]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X85372 mRNA. Translation: CAA59688.1.
CR456751 mRNA. Translation: CAG33032.1.
AK311752 mRNA. Translation: BAG34695.1.
CH471054 Genomic DNA. Translation: EAW97548.1.
BC002505 mRNA. Translation: AAH02505.3.
BC063397 mRNA. Translation: AAH63397.2.
BC128452 mRNA. Translation: AAI28453.1.
BC128453 mRNA. Translation: AAI28454.1.

IPI

IPI00220528.

PIR

S55053.

RefSeq

NP_003086.1. NM_003095.2.

UniGene

Hs.105465.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1VU2	X-ray	3.10	D/L/T/b/j/r/z	1-86	[»]
1VU3	X-ray	3.10	D/L/T/b/j/r	1-86	[»]
2Y9A	X-ray	3.60	F/M/T	1-86	[»]
2Y9B	X-ray	3.60	F/M/T	1-86	[»]
2Y9C	X-ray	3.60	F/M/T	1-86	[»]
2Y9D	X-ray	3.60	F/M/T	1-86	[»]
3CW1	X-ray	5.49	1/2/F/Z	1-86	[»]
3PGW	X-ray	4.40	F/I	1-86	[»]
3S6N	X-ray	2.50	F	1-86	[»]
4F77	X-ray	3.10	D/L/T/b/j/r/z	1-86	[»]

ProteinModelPortal

P62306.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-31221N.

IntAct

P62306. 17 interactions.

MINT

MINT-1137229.

STRING

9606.ENSP00000266735.

PTM databases

PhosphoSite

P62306.

Polymorphism databases

DMDM

61237391.

Proteomic databases

PaxDb

P62306.

PeptideAtlas

P62306.

PRIDE

P62306.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000266735; ENSP00000266735; ENSG00000139343.

GeneID

6636.

KEGG

hsa:6636.

UCSC

uc001tej.3. human.

Organism-specific databases

CTD

6636.

GeneCards

GC12P096252.

HGNC

HGNC:11162. SNRPF.

MIM

603541. gene.

neXtProt

NX_P62306.

PharmGKB

PA36003.

GenAtlas

Search...

Phylogenomic databases

eggNOG

COG1958.

HOVERGEN

HBG052369.

InParanoid

P62306.

KO

K11098.

OMA

KWGHEYK.

OrthoDB

EOG4TMR3P.

PhylomeDB

P62306.

Enzyme and pathway databases

Reactome

REACT_1675. mRNA Processing.
REACT_1788. Transcription.
REACT_21257. Metabolism of RNA.
REACT_71. Gene Expression.
REACT_78. Post-Elongation Processing of the Transcript.

Gene expression databases

ArrayExpress

P62306.

Bgee

P62306.

CleanEx

HS_SNRPF.

Genevestigator

P62306.

GermOnline

ENSG00000139343. Homo sapiens.

Family and domain databases

InterPro

IPR010920. LSM_dom.
IPR001163. Ribonucl_LSM.
IPR006649. Ribonucl_LSM_euk/arc.
IPR016487. snRNP_SmF.
[Graphical view]

Pfam

PF01423. LSM. 1 hit.
[Graphical view]

PIRSF

PIRSF006609. snRNP_SmF. 1 hit.

SMART

SM00651. Sm. 1 hit.
[Graphical view]

SUPFAM

SSF50182. Sm_like_riboprot. 1 hit.

ProtoNet

Search...

Other

ChiTaRS

SNRPF. human.

EvolutionaryTrace

P62306.

GenomeRNAi

6636.

NextBio

25853.

PMAP-CutDB

P62306.

SOURCE

Search...

Entry information

Entry name

RUXF_HUMAN

Accession

Primary (citable) accession number: P62306
Secondary accession number(s): A2VCR2 , B2R498, Q15356, Q6IBQ1, Q6P4I0

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 5, 2004
Last sequence update:	July 5, 2004
Last modified:	May 29, 2013
This is version 91 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.