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Protein

U1 small nuclear ribonucleoprotein A

Gene

snf

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP (By similarity). Plays a role in regulating sex-lethal splicing.By similarity1 Publication

GO - Molecular functioni

  • identical protein binding Source: FlyBase
  • mRNA binding Source: FlyBase
  • nucleotide binding Source: InterPro
  • poly(U) RNA binding Source: FlyBase
  • pre-mRNA intronic pyrimidine-rich binding Source: FlyBase
  • snRNA stem-loop binding Source: FlyBase
  • U1 snRNA binding Source: FlyBase
  • U2 snRNA binding Source: FlyBase

GO - Biological processi

  • female germ-line sex determination Source: FlyBase
  • mRNA splicing, via spliceosome Source: FlyBase
  • oogenesis Source: FlyBase
  • primary sex determination, soma Source: FlyBase
  • regulation of alternative mRNA splicing, via spliceosome Source: FlyBase
  • RNA splicing Source: FlyBase
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-DME-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
U1 small nuclear ribonucleoprotein A
Short name:
U1 snRNP A
Short name:
U1-A
Short name:
U1A
Alternative name(s):
Sex determination protein snf
Gene namesi
Name:snf
Synonyms:D25, fs(1)1621, liz
ORF Names:CG4528
OrganismiDrosophila melanogaster (Fruit fly)
Taxonomic identifieri7227 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraEndopterygotaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
Proteomesi
  • UP000000803 Componenti: Chromosome X

Organism-specific databases

FlyBaseiFBgn0003449. snf.

Subcellular locationi

GO - Cellular componenti

  • catalytic step 2 spliceosome Source: FlyBase
  • intracellular ribonucleoprotein complex Source: FlyBase
  • nucleus Source: FlyBase
  • precatalytic spliceosome Source: FlyBase
  • protein complex Source: FlyBase
  • small nuclear ribonucleoprotein complex Source: FlyBase
  • spliceosomal complex Source: FlyBase
  • U1 snRNP Source: GO_Central
  • U2 snRNP Source: FlyBase
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 216216U1 small nuclear ribonucleoprotein APRO_0000081890Add
BLAST

Proteomic databases

PaxDbiP43332.
PRIDEiP43332.

Expressioni

Gene expression databases

BgeeiP43332.
ExpressionAtlasiP43332. differential.
GenevisibleiP43332. DM.

Interactioni

Subunit structurei

Belongs to the spliceosome where it is associated with snRNP U1. Interacts with the SMN complex.1 Publication

GO - Molecular functioni

  • identical protein binding Source: FlyBase

Protein-protein interaction databases

BioGridi57952. 9 interactions.
DIPiDIP-23676N.
IntActiP43332. 2 interactions.
MINTiMINT-1634151.
STRINGi7227.FBpp0070716.

Structurei

Secondary structure

1
216
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi7 – 115Combined sources
Helixi20 – 3011Combined sources
Helixi31 – 344Combined sources
Beta strandi37 – 415Combined sources
Helixi46 – 483Combined sources
Beta strandi52 – 587Combined sources
Helixi59 – 6911Combined sources
Beta strandi73 – 786Combined sources
Beta strandi81 – 877Combined sources
Helixi88 – 958Combined sources
Beta strandi142 – 1487Combined sources
Helixi155 – 1628Combined sources
Beta strandi168 – 1736Combined sources
Turni175 – 1773Combined sources
Beta strandi179 – 1868Combined sources
Helixi188 – 19811Combined sources
Beta strandi201 – 2044Combined sources
Beta strandi208 – 2136Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2AYMNMR-A134-216[»]
2B0GNMR-A134-216[»]
2K3KNMR-A1-98[»]
ProteinModelPortaliP43332.
SMRiP43332. Positions 1-104, 134-216.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP43332.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini7 – 8680RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini142 – 21675RRM 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the RRM U1 A/B'' family.Curated
Contains 2 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG4206. Eukaryota.
ENOG410XPZI. LUCA.
GeneTreeiENSGT00390000007046.
InParanoidiP43332.
OMAiVQPVPGM.
OrthoDBiEOG77DJ77.
PhylomeDBiP43332.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR024888. RRM_U1_A/B''.
[Graphical view]
PANTHERiPTHR10501. PTHR10501. 1 hit.
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P43332-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEMLPNQTIY INNLNEKIKK EELKKSLYAI FSQFGQILDI VALKTLKMRG
60 70 80 90 100
QAFVIFKEIG SASNALRTMQ GFPFYDKPMQ IAYSKSDSDI VAKIKGTFKE
110 120 130 140 150
RPKKVKPPKP APGTDEKKDK KKKPSSAENS NPNAQTEQPP NQILFLTNLP
160 170 180 190 200
EETNEMMLSM LFNQFPGFKE VRLVPNRHDI AFVEFTTELQ SNAAKEALQG
210
FKITPTHAMK ITFAKK
Length:216
Mass (Da):24,547
Last modified:November 1, 1995 - v1
Checksum:i5B736FFE36523373
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti49 – 491R → H in allele SNF1621; sterile.

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M89775 mRNA. Translation: AAA28441.1.
L29521 Genomic DNA. Translation: AAA28903.1.
AE014298 Genomic DNA. Translation: AAF46017.1.
AY061491 mRNA. Translation: AAL29039.1.
PIRiA54279.
RefSeqiNP_511045.1. NM_078490.4.
UniGeneiDm.2625.

Genome annotation databases

EnsemblMetazoaiFBtr0070748; FBpp0070716; FBgn0003449.
GeneIDi31442.
KEGGidme:Dmel_CG4528.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M89775 mRNA. Translation: AAA28441.1.
L29521 Genomic DNA. Translation: AAA28903.1.
AE014298 Genomic DNA. Translation: AAF46017.1.
AY061491 mRNA. Translation: AAL29039.1.
PIRiA54279.
RefSeqiNP_511045.1. NM_078490.4.
UniGeneiDm.2625.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2AYMNMR-A134-216[»]
2B0GNMR-A134-216[»]
2K3KNMR-A1-98[»]
ProteinModelPortaliP43332.
SMRiP43332. Positions 1-104, 134-216.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi57952. 9 interactions.
DIPiDIP-23676N.
IntActiP43332. 2 interactions.
MINTiMINT-1634151.
STRINGi7227.FBpp0070716.

Proteomic databases

PaxDbiP43332.
PRIDEiP43332.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiFBtr0070748; FBpp0070716; FBgn0003449.
GeneIDi31442.
KEGGidme:Dmel_CG4528.

Organism-specific databases

CTDi31442.
FlyBaseiFBgn0003449. snf.

Phylogenomic databases

eggNOGiKOG4206. Eukaryota.
ENOG410XPZI. LUCA.
GeneTreeiENSGT00390000007046.
InParanoidiP43332.
OMAiVQPVPGM.
OrthoDBiEOG77DJ77.
PhylomeDBiP43332.

Enzyme and pathway databases

ReactomeiR-DME-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

ChiTaRSisnf. fly.
EvolutionaryTraceiP43332.
GenomeRNAii31442.
PROiP43332.

Gene expression databases

BgeeiP43332.
ExpressionAtlasiP43332. differential.
GenevisibleiP43332. DM.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR024888. RRM_U1_A/B''.
[Graphical view]
PANTHERiPTHR10501. PTHR10501. 1 hit.
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "RNA binding specificity of a Drosophila snRNP protein that shares sequence homology with mammalian U1-A and U2-B' proteins."
    Harper D.S., Fresco L.D., Keene J.D.
    Nucleic Acids Res. 20:3645-3650(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "The Drosophila sex determination gene snf encodes a nuclear protein with sequence and functional similarity to the mammalian U1A snRNP protein."
    Flickinger T.W., Salz H.K.
    Genes Dev. 8:914-925(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], FUNCTION.
    Strain: Oregon-R.
  3. "The genome sequence of Drosophila melanogaster."
    Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne J.D., Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F., George R.A., Lewis S.E., Richards S., Ashburner M., Henderson S.N., Sutton G.G., Wortman J.R., Yandell M.D.
    , Zhang Q., Chen L.X., Brandon R.C., Rogers Y.-H.C., Blazej R.G., Champe M., Pfeiffer B.D., Wan K.H., Doyle C., Baxter E.G., Helt G., Nelson C.R., Miklos G.L.G., Abril J.F., Agbayani A., An H.-J., Andrews-Pfannkoch C., Baldwin D., Ballew R.M., Basu A., Baxendale J., Bayraktaroglu L., Beasley E.M., Beeson K.Y., Benos P.V., Berman B.P., Bhandari D., Bolshakov S., Borkova D., Botchan M.R., Bouck J., Brokstein P., Brottier P., Burtis K.C., Busam D.A., Butler H., Cadieu E., Center A., Chandra I., Cherry J.M., Cawley S., Dahlke C., Davenport L.B., Davies P., de Pablos B., Delcher A., Deng Z., Mays A.D., Dew I., Dietz S.M., Dodson K., Doup L.E., Downes M., Dugan-Rocha S., Dunkov B.C., Dunn P., Durbin K.J., Evangelista C.C., Ferraz C., Ferriera S., Fleischmann W., Fosler C., Gabrielian A.E., Garg N.S., Gelbart W.M., Glasser K., Glodek A., Gong F., Gorrell J.H., Gu Z., Guan P., Harris M., Harris N.L., Harvey D.A., Heiman T.J., Hernandez J.R., Houck J., Hostin D., Houston K.A., Howland T.J., Wei M.-H., Ibegwam C., Jalali M., Kalush F., Karpen G.H., Ke Z., Kennison J.A., Ketchum K.A., Kimmel B.E., Kodira C.D., Kraft C.L., Kravitz S., Kulp D., Lai Z., Lasko P., Lei Y., Levitsky A.A., Li J.H., Li Z., Liang Y., Lin X., Liu X., Mattei B., McIntosh T.C., McLeod M.P., McPherson D., Merkulov G., Milshina N.V., Mobarry C., Morris J., Moshrefi A., Mount S.M., Moy M., Murphy B., Murphy L., Muzny D.M., Nelson D.L., Nelson D.R., Nelson K.A., Nixon K., Nusskern D.R., Pacleb J.M., Palazzolo M., Pittman G.S., Pan S., Pollard J., Puri V., Reese M.G., Reinert K., Remington K., Saunders R.D.C., Scheeler F., Shen H., Shue B.C., Siden-Kiamos I., Simpson M., Skupski M.P., Smith T.J., Spier E., Spradling A.C., Stapleton M., Strong R., Sun E., Svirskas R., Tector C., Turner R., Venter E., Wang A.H., Wang X., Wang Z.-Y., Wassarman D.A., Weinstock G.M., Weissenbach J., Williams S.M., Woodage T., Worley K.C., Wu D., Yang S., Yao Q.A., Ye J., Yeh R.-F., Zaveri J.S., Zhan M., Zhang G., Zhao Q., Zheng L., Zheng X.H., Zhong F.N., Zhong W., Zhou X., Zhu S.C., Zhu X., Smith H.O., Gibbs R.A., Myers E.W., Rubin G.M., Venter J.C.
    Science 287:2185-2195(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Berkeley.
  4. Cited for: GENOME REANNOTATION.
    Strain: Berkeley.
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: Berkeley.
  6. "Evolution of an RNP assembly system: a minimal SMN complex facilitates formation of UsnRNPs in Drosophila melanogaster."
    Kroiss M., Schultz J., Wiesner J., Chari A., Sickmann A., Fischer U.
    Proc. Natl. Acad. Sci. U.S.A. 105:10045-10050(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH THE SMN COMPLEX.

Entry informationi

Entry nameiSNRPA_DROME
AccessioniPrimary (citable) accession number: P43332
Secondary accession number(s): Q9W4D7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: November 1, 1995
Last modified: July 6, 2016
This is version 143 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programDrosophila annotation project

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Drosophila
    Drosophila: entries, gene names and cross-references to FlyBase
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.