UniProtKB - X1WGX5 (PUM3_DANRE)
Protein
Pumilio homolog 3
Gene
pum3
Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Functioni
Inhibits the poly(ADP-ribosyl)ation activity of PARP1 and the degradation of PARP1 by CASP3 following genotoxic stress (By similarity). Binds to double-stranded RNA or DNA without sequence specificity (By similarity). Involved in development of the eye and of primordial germ cells (PubMed:19319195).By similarity1 Publication
GO - Molecular functioni
- DNA binding Source: UniProtKB-KW
- mRNA binding Source: GO_Central
GO - Biological processi
- germ cell migration Source: ZFIN
- regulation of translation Source: GO_Central
Keywordsi
Molecular function | DNA-binding, RNA-binding |
Names & Taxonomyi
Protein namesi | Recommended name: Pumilio homolog 3Curated |
Gene namesi | Name:pum3 Synonyms:puf-a1 Publication |
Organismi | Danio rerio (Zebrafish) (Brachydanio rerio)Imported |
Taxonomic identifieri | 7955 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Actinopterygii › Neopterygii › Teleostei › Ostariophysi › Cypriniformes › Danionidae › Danioninae › Danio |
Proteomesi |
|
Organism-specific databases
ZFINi | ZDB-GENE-030131-9808, pum3 |
Subcellular locationi
Nucleus
- nucleolus By similarity
- nucleoplasm By similarity
Other locations
- Chromosome By similarity
Nucleus
- nucleolus Source: GO_Central
- nucleoplasm Source: UniProtKB-SubCell
Other locations
- chromosome Source: UniProtKB
Keywords - Cellular componenti
Chromosome, NucleusPathology & Biotechi
Disruption phenotypei
Morpholino knockdown in embryos results in small eyes, small head and brain edema at 1 and 2 days post-fertilization (dpf). At 3 and 5 dpf, mutants exhibit features of an undifferentiated retina with loss of detailed architecture and a significant reduction in eye size. Structures such as the rod and cone layers are not concentrically organized and retinal ganglion cells and plexiform layers are not readily discernible. Mutants also show abnormal primordial germ cell migration.1 Publication
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000435333 | 1 – 629 | Pumilio homolog 3Add BLAST | 629 |
Proteomic databases
PaxDbi | X1WGX5 |
Expressioni
Tissue specificityi
In adult, expressed at high levels in eye and ovary and at lower levels in brain, testis and head kidney. In the adult ovary, prominently expressed in early immature follicles.1 Publication
Developmental stagei
Expressed throughout embryogenesis. In the adult ovary, strong expression detected in primitive stage I ovarian follicles with levels declining sharply and becoming negligible in subsequent stages of oocyte development.1 Publication
Gene expression databases
Bgeei | ENSDARG00000087779, Expressed in presomitic mesoderm and 35 other tissues |
ExpressionAtlasi | X1WGX5, baseline |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 120 – 473 | PUM-HDPROSITE-ProRule annotationAdd BLAST | 354 | |
Repeati | 160 – 195 | Pumilio 1By similarityAdd BLAST | 36 | |
Repeati | 196 – 231 | Pumilio 2By similarityAdd BLAST | 36 | |
Repeati | 232 – 260 | Pumilio 3By similarityAdd BLAST | 29 | |
Repeati | 272 – 308 | Pumilio 4By similarityAdd BLAST | 37 | |
Repeati | 309 – 344 | Pumilio 5By similarityAdd BLAST | 36 | |
Repeati | 345 – 380 | Pumilio 6By similarityAdd BLAST | 36 | |
Repeati | 381 – 418 | Pumilio 7By similarityAdd BLAST | 38 | |
Repeati | 419 – 487 | Pumilio 8By similarityAdd BLAST | 69 | |
Repeati | 488 – 534 | Pumilio 9By similarityAdd BLAST | 47 | |
Repeati | 535 – 579 | Pumilio 10By similarityAdd BLAST | 45 | |
Repeati | 580 – 618 | Pumilio 11By similarityAdd BLAST | 39 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 88 – 100 | Nuclear localization signalBy similarityAdd BLAST | 13 |
Domaini
A 90 degree bend between Pumilio repeats 3 and 4 gives rise to a L-shaped protein.By similarity
Keywords - Domaini
RepeatPhylogenomic databases
eggNOGi | KOG2050, Eukaryota |
GeneTreei | ENSGT00390000015757 |
HOGENOMi | CLU_013994_0_1_1 |
OMAi | MCQSKYA |
OrthoDBi | 845051at2759 |
Family and domain databases
Gene3Di | 1.25.10.10, 1 hit |
InterProi | View protein in InterPro IPR011989, ARM-like IPR016024, ARM-type_fold IPR012959, CPL_dom IPR033133, PUM-HD IPR040059, PUM3 IPR001313, Pumilio_RNA-bd_rpt |
PANTHERi | PTHR13389, PTHR13389, 1 hit |
Pfami | View protein in Pfam PF08144, CPL, 1 hit PF00806, PUF, 2 hits |
SMARTi | View protein in SMART SM00025, Pumilio, 6 hits |
SUPFAMi | SSF48371, SSF48371, 2 hits |
PROSITEi | View protein in PROSITE PS50302, PUM, 5 hits PS50303, PUM_HD, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All
X1WGX5-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MEGKPRKKSF TPRDGKKPSF KSKGKPGGKP QGKRPFKPHN NDKGKGFRKS
60 70 80 90 100
GGEGGPQKFN RKPTDGKFAK KRKFPGDRIK QEEGDERKKP KWDEFKQKKK
110 120 130 140 150
ELKLNRQQTD RKESYQIVSR AKQVWEMVRR KDCDKQKRTK LMKELQDLVK
160 170 180 190 200
GKIKTIAFAH DSTRVLQCFI QFGSDKQRKE VFDELKEHIV ELSKSKYARN
210 220 230 240 250
IVKKFLMYGS KEQVGEVMLA FKGKVRQMLR HSEASSVVEY AYNDKAILSQ
260 270 280 290 300
RLMLTEELYG NTFTVLKSSV CPTLEKVLEA NPGKLESILD EMKQILTPMA
310 320 330 340 350
QKEAVIKHSL VHKVFLDFFE HAPDKQRTEM IESIREAVVY MAHTHDGARV
360 370 380 390 400
TMHCLWHGTT KDRKVIVKTM KSYIAKFAMG EYAHLVLLAA FDCIDDTKLV
410 420 430 440 450
KQIIISEMVS SLSEIISNKH GKKVLLYLLS PRDPAHLLPE IIQVLEKGDG
460 470 480 490 500
NAHSKKDVLI RRKELLEAAS PSLLNHLCEN AQSMVMDKSC CVVVSDILGS
510 520 530 540 550
AVGDLRPAME AVAALADGPL IPGGKDGQLH MAEHPAGHLV LKWLIEQDTK
560 570 580 590 600
MKDTEREERF SRILLEKVGL ENLKTWASVN RGAIILCCLL QSADESVAEE
610 620
VKAMLKSSIP ELQRLQNSKG IEVLLEKLA
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketE9QJ83 | E9QJ83_DANRE | Pumilio homolog 3 | pum3 | 601 | Annotation score: | ||
E9QFL4 | E9QFL4_DANRE | Pumilio homolog 3 | pum3 | 186 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 85 | D → A no nucleotide entry (PubMed:19319195).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | CR628386 Genomic DNA No translation available. |
RefSeqi | XP_003199363.1, XM_003199315.3 |
Genome annotation databases
Ensembli | ENSDART00000154037; ENSDARP00000129484; ENSDARG00000087779 ENSDART00000189109; ENSDARP00000153216; ENSDARG00000087779 |
GeneIDi | 553068 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | CR628386 Genomic DNA No translation available. |
RefSeqi | XP_003199363.1, XM_003199315.3 |
3D structure databases
SMRi | X1WGX5 |
ModBasei | Search... |
Protein-protein interaction databases
STRINGi | 7955.ENSDARP00000129484 |
Proteomic databases
PaxDbi | X1WGX5 |
Genome annotation databases
Ensembli | ENSDART00000154037; ENSDARP00000129484; ENSDARG00000087779 ENSDART00000189109; ENSDARP00000153216; ENSDARG00000087779 |
GeneIDi | 553068 |
Organism-specific databases
CTDi | 9933 |
ZFINi | ZDB-GENE-030131-9808, pum3 |
Phylogenomic databases
eggNOGi | KOG2050, Eukaryota |
GeneTreei | ENSGT00390000015757 |
HOGENOMi | CLU_013994_0_1_1 |
OMAi | MCQSKYA |
OrthoDBi | 845051at2759 |
Miscellaneous databases
PROi | PR:X1WGX5 |
Gene expression databases
Bgeei | ENSDARG00000087779, Expressed in presomitic mesoderm and 35 other tissues |
ExpressionAtlasi | X1WGX5, baseline |
Family and domain databases
Gene3Di | 1.25.10.10, 1 hit |
InterProi | View protein in InterPro IPR011989, ARM-like IPR016024, ARM-type_fold IPR012959, CPL_dom IPR033133, PUM-HD IPR040059, PUM3 IPR001313, Pumilio_RNA-bd_rpt |
PANTHERi | PTHR13389, PTHR13389, 1 hit |
Pfami | View protein in Pfam PF08144, CPL, 1 hit PF00806, PUF, 2 hits |
SMARTi | View protein in SMART SM00025, Pumilio, 6 hits |
SUPFAMi | SSF48371, SSF48371, 2 hits |
PROSITEi | View protein in PROSITE PS50302, PUM, 5 hits PS50303, PUM_HD, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | PUM3_DANRE | |
Accessioni | X1WGX5Primary (citable) accession number: X1WGX5 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | January 20, 2016 |
Last sequence update: | January 20, 2016 | |
Last modified: | December 2, 2020 | |
This is version 45 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program |