Q8T6B9 (PUF68_DROME) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Poly(U)-binding-splicing factor half pint
Short name=Protein half pint

Alternative name(s):
68 kDa poly(U)-binding-splicing factor
PUF60 homolog

Gene names

Name:	pUf68
Synonyms:	hfp
ORF Names:	CG12085

Organism

Drosophila melanogaster (Fruit fly)

Taxonomic identifier

7227 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Arthropoda › Hexapoda › Insecta › Pterygota › Neoptera › Endopterygota › Diptera › Brachycera › Muscomorpha › Ephydroidea › Drosophilidae › Drosophila › Sophophora

Protein attributes

Sequence length	637 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Splicing factor that regulates oogenesis and controls both mitosis and mRNA localization in the germline by regulating mRNA splicing of a subset of genes within the ovary. Probably acts by regulating the alternative splice site selection of the otu transcript. Also regulates the alternative splicing of eIF-4E and grk, while it is not involved in the splicing of par-1, sqd and psq. Ref.2
Subunit structure	Interacts with enc. However, given the cytoplasmic localization of enc, the relevance of such interaction is unclear. Ref.2
Subcellular location	Nucleus Ref.2.
Tissue specificity	Expressed in all germline cells and within the follicle cell. Ref.2
Domain	The third RNA recognition motif, called PUMP domain in Ref.1, is atypical and may rather mediate protein-protein interactions. Ref.1
Sequence similarities	Belongs to the RRM half pint family. Contains 3 RRM (RNA recognition motif) domains.

Ontologies

Keywords
Biological process	Differentiation Oogenesis mRNA processing mRNA splicing
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Repeat
Ligand	RNA-binding
Molecular function	Developmental protein
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	alternative nuclear mRNA splicing, via spliceosome Inferred from mutant phenotype Ref.2. Source: FlyBase cystoblast division Inferred from mutant phenotype Ref.2. Source: FlyBase mRNA splice site selection Inferred from mutant phenotype Ref.2. Source: FlyBase multicellular organismal development Inferred from electronic annotation. Source: UniProtKB-KW oogenesis Inferred from electronic annotation. Source: UniProtKB-KW regulation of alternative nuclear mRNA splicing, via spliceosome Inferred from mutant phenotype. Source: FlyBase regulation of cell growth Inferred from mutant phenotype. Source: FlyBase
Cellular component	catalytic step 2 spliceosome Inferred from direct assay. Source: FlyBase precatalytic spliceosome Inferred from direct assay. Source: FlyBase protein complex Inferred from physical interaction. Source: FlyBase
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: FlyBase
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform A (identifier: Q8T6B9-1)

Also known as: Long;

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 B (identifier: Q8T6B9-2)

Also known as: C;

The sequence of this isoform differs from the canonical sequence as follows:
     1-92: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 637	637	Poly(U)-binding-splicing factor half pint		PRO_0000081744
Regions
	Domain	130 – 208	79	RRM 1
	Domain	227 – 305	79	RRM 2
	Domain	537 – 627	91	RRM 3; atypical
	Compositional bias	322 – 479	158	Ala-rich
Amino acid modifications
	Modified residue	13	1	Phosphoserine Ref.6
	Modified residue	30	1	Phosphoserine Ref.6
Natural variations
	Alternative sequence	1 – 92	92	Missing in isoform B.		VSP_009328
Experimental info
	Sequence conflict	583	1	D → A in AAL86452. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform A (Long) [UniParc]. Last modified February 2, 2004. Version 2. Checksum: F0AD184D9EEF145F	FASTA	637	67,940
	10 20 30 40 50 60 MGSNDRASRS PRSDDQREIS DMPATKRTRS DSGKSTDSKI PYLSQPLYDL KQTGDVKFGP 70 80 90 100 110 120 GTRSALLGLL GGALPKLSSE QHDLVSKAKK YAMEQSIKMV LMKQTLAHQQ QQLATQRTQV 130 140 150 160 170 180 QRQQALALMC RVYVGSISFE LKEDTIRVAF TPFGPIKSIN MSWDPITQKH KGFAFVEYEI 190 200 210 220 230 240 PEGAQLALEQ MNGALMGGRN IKVGRPSNMP QAQQVIDEVQ EEAKSFNRIY VASIHPDLSE 250 260 270 280 290 300 EDIKSVFEAF GPILYCKLAQ GTSLHTHKGY GFIEYANKQA MDEAIASMNL FDLGGQLLRV 310 320 330 340 350 360 GRSITPPNAL ACPTTNSTMP TAAAVAAAAA TAKIQALDAV ASNAVLGLSQ NTPVMAAGAV 370 380 390 400 410 420 VTKVGAMPVV SAATSAAALH PALAQAAPAL LPPGIFQAPT PVAPSLLGVP AGLQPLQAVV 430 440 450 460 470 480 PTLPPPALLA TPTLPMTVGG VGVGLVPTVA TLAGAEASKG AAAAAALSAA ANNAAVTAAN 490 500 510 520 530 540 LSENIKKAHE KQQEELQKKL MDEGDVQTLQ QQENMSIKGQ SARQLVMQRL MRPVDSRVII 550 560 570 580 590 600 LRNMVGPEDV DETLQEEIQE ECSKFGTVSR VIIFNEKQTE NEDDDEAEII VKIFVEFSAG 610 620 630 AEAMRGKEAL DGRFFGGRRV VAELYDQGIF DQGDLSG
	Isoform B (C) [UniParc]. Checksum: E75E378F7D07F24E	FASTA	545	57,989
	10 20 30 40 50 60 MEQSIKMVLM KQTLAHQQQQ LATQRTQVQR QQALALMCRV YVGSISFELK EDTIRVAFTP 70 80 90 100 110 120 FGPIKSINMS WDPITQKHKG FAFVEYEIPE GAQLALEQMN GALMGGRNIK VGRPSNMPQA 130 140 150 160 170 180 QQVIDEVQEE AKSFNRIYVA SIHPDLSEED IKSVFEAFGP ILYCKLAQGT SLHTHKGYGF 190 200 210 220 230 240 IEYANKQAMD EAIASMNLFD LGGQLLRVGR SITPPNALAC PTTNSTMPTA AAVAAAAATA 250 260 270 280 290 300 KIQALDAVAS NAVLGLSQNT PVMAAGAVVT KVGAMPVVSA ATSAAALHPA LAQAAPALLP 310 320 330 340 350 360 PGIFQAPTPV APSLLGVPAG LQPLQAVVPT LPPPALLATP TLPMTVGGVG VGLVPTVATL 370 380 390 400 410 420 AGAEASKGAA AAAALSAAAN NAAVTAANLS ENIKKAHEKQ QEELQKKLMD EGDVQTLQQQ 430 440 450 460 470 480 ENMSIKGQSA RQLVMQRLMR PVDSRVIILR NMVGPEDVDE TLQEEIQEEC SKFGTVSRVI 490 500 510 520 530 540 IFNEKQTENE DDDEAEIIVK IFVEFSAGAE AMRGKEALDG RFFGGRRVVA ELYDQGIFDQ GDLSG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"PUF60: a novel U2AF65-related splicing activity." Page-McCaw P.S., Amonlirdviman K., Sharp P.A. RNA 5:1548-1560(1999) [PubMed: 10606266] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A), DOMAIN.
[2]	"Half pint regulates alternative splice site selection in Drosophila." Van Buskirk C., Schuepbach T. Dev. Cell 2:343-353(2002) [PubMed: 11879639] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A), FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, INTERACTION WITH ENC.
[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: 10731132] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Berkeley.
[4]	"Annotation of the Drosophila melanogaster euchromatic genome: a systematic review." Misra S., Crosby M.A., Mungall C.J., Matthews B.B., Campbell K.S., Hradecky P., Huang Y., Kaminker J.S., Millburn G.H., Prochnik S.E., Smith C.D., Tupy J.L., Whitfield E.J., Bayraktaroglu L., Berman B.P., Bettencourt B.R., Celniker S.E., de Grey A.D.N.J. , Drysdale R.A., Harris N.L., Richter J., Russo S., Schroeder A.J., Shu S.Q., Stapleton M., Yamada C., Ashburner M., Gelbart W.M., Rubin G.M., Lewis S.E. Genome Biol. 3:RESEARCH0083.1-RESEARCH0083.22(2002) [PubMed: 12537572] [Abstract] Cited for: GENOME REANNOTATION, ALTERNATIVE SPLICING. Strain: Berkeley.
[5]	"A Drosophila full-length cDNA resource." Stapleton M., Carlson J.W., Brokstein P., Yu C., Champe M., George R.A., Guarin H., Kronmiller B., Pacleb J.M., Park S., Wan K.H., Rubin G.M., Celniker S.E. Genome Biol. 3:RESEARCH0080.1-RESEARCH0080.8(2002) [PubMed: 12537569] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM B). Strain: Berkeley. Tissue: Head.
[6]	"Phosphoproteome analysis of Drosophila melanogaster embryos." Zhai B., Villen J., Beausoleil S.A., Mintseris J., Gygi S.P. J. Proteome Res. 7:1675-1682(2008) [PubMed: 18327897] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-13 AND SER-30, MASS SPECTROMETRY. Tissue: Embryo.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF190745 mRNA. Translation: AAF04132.1. AF479079 mRNA. Translation: AAL86452.1. AE014296 Genomic DNA. Translation: AAF47501.1. AE014296 Genomic DNA. Translation: AAG22221.1. AY061006 mRNA. Translation: AAL28554.1. BT003317 mRNA. Translation: AAO25077.1.
RefSeq	NP_001163315.1. NM_001169844.1. NP_001163316.1. NM_001169845.1. NP_001163317.1. NM_001169846.1. NP_001163318.1. NM_001169847.1. NP_001163319.1. NM_001169848.1. NP_001163320.1. NM_001169849.1. NP_525123.2. NM_080384.3. NP_728610.1. NM_167880.2. NP_728611.1. NM_167881.2. NP_728612.1. NM_167882.2.
UniGene	Dm.7331.
3D structure databases
ProteinModelPortal	Q8T6B9.
SMR	Q8T6B9. Positions 121-315, 535-637.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q8T6B9. 15 interactions.
MINT	MINT-742668.
STRING	Q8T6B9.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblMetazoa	FBtr0072709; FBpp0072593; FBgn0028577.
GeneID	38173.
KEGG	dme:Dmel_CG12085.
Organism-specific databases
CTD	38173.
FlyBase	FBgn0028577. pUf68.
Phylogenomic databases
eggNOG	inNOG04423.
GeneTree	EMGT00050000000048.
InParanoid	Q8T6B9.
OMA	QGTDSIK.
OrthoDB	EOG40RXXN.
PhylomeDB	Q8T6B9.
Gene expression databases
ArrayExpress	Q8T6B9.
Bgee	Q8T6B9.
GermOnline	CG12085. Drosophila melanogaster.
Family and domain databases
InterPro	IPR012677. Nucleotide-bd_a/b_plait. IPR006532. PolyU-bd. IPR000504. RRM_dom. [Graphical view]
Gene3D	G3DSA:3.30.70.330. a_b_plait_nuc_bd. 3 hits.
KO	K12838.
Pfam	PF00076. RRM_1. 2 hits. [Graphical view]
SMART	SM00360. RRM. 3 hits. [Graphical view]
TIGRFAMs	TIGR01645. Half-pint. 1 hit.
PROSITE	PS50102. RRM. 3 hits. [Graphical view]
ProtoNet	Search...
Other
NextBio	807323.

Entry information

Entry name

PUF68_DROME

Accession

Primary (citable) accession number: Q8T6B9
Secondary accession number(s): Q0E8J8 , Q95S11, Q9U696, Q9W0E6, Q9W0E7

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 2, 2004
Last sequence update:	February 2, 2004
Last modified:	January 25, 2012
This is version 91 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Drosophila annotation project