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Protein

Putative ATP-dependent RNA helicase TDRD9

Gene

Tdrd9

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Probable ATP-binding RNA helicase which plays a central role during spermatogenesis by repressing transposable elements and preventing their mobilization, which is essential for the germline integrity. Acts via the piRNA metabolic process, which mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and govern the methylation and subsequent repression of transposons. Its association with PIWIL4 and the piP-bodies suggests a participation in the secondary piRNAs metabolic process (By similarity).By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi157 – 1648ATPPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein, Helicase, Hydrolase

Keywords - Biological processi

Differentiation, Meiosis, RNA-mediated gene silencing, Spermatogenesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Putative ATP-dependent RNA helicase TDRD9 (EC:3.6.4.13)
Alternative name(s):
Tudor domain-containing protein 9
Gene namesi
Name:Tdrd9
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 6

Organism-specific databases

RGDi1306942. Tdrd9.

Subcellular locationi

  • Cytoplasm By similarity
  • Nucleus By similarity

  • Note: Component of the nuage, also named P granule, a germ-cell-specific organelle required to repress transposon during meiosis. Specifically localizes to piP-bodies, a subset of the nuage which contains secondary piRNAs. PIWIL2 is required for its localization to piP-bodies (By similarity).By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 13841384Putative ATP-dependent RNA helicase TDRD9PRO_0000333815Add
BLAST

Proteomic databases

PaxDbiQ3MHU3.
PRIDEiQ3MHU3.

Expressioni

Gene expression databases

BgeeiENSRNOG00000012792.

Interactioni

Subunit structurei

Interacts with piRNA-associated proteins PIWIL1 and PIWIL4.By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000017118.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini144 – 310167Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini379 – 546168Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST
Domaini946 – 100661TudorPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi256 – 2594DEAH box

Sequence similaritiesi

Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation
Contains 1 Tudor domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0920. Eukaryota.
COG1643. LUCA.
GeneTreeiENSGT00760000119189.
HOGENOMiHOG000047965.
InParanoidiQ3MHU3.
KOiK18408.
OMAiDPCRTVY.
OrthoDBiEOG091G17CM.
PhylomeDBiQ3MHU3.
TreeFamiTF324869.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR007502. Helicase-assoc_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR002999. Tudor.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF04408. HA2. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00567. TUDOR. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00847. HA2. 1 hit.
SM00490. HELICc. 1 hit.
SM00333. TUDOR. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS50304. TUDOR. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q3MHU3-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MLRKLTVDQI NDWFTIGKTV TNVELLGLPP AFPAEAPREE VQRSEEVPSE
60 70 80 90 100
APTAQAQDPV KATALARPAS AFGRSLSQRS SEVEYINKYR QLEAQELDIY
110 120 130 140 150
GQDQPPSGPG LRSPLAKISN VACIPETTYK YPDLPINRCK EEVISLIESN
160 170 180 190 200
SVVIIHGATG SGKSTQLPQY VLDHYTQRSA FCNIVVTQPR KIGASSIARW
210 220 230 240 250
ISKERSWTLG GLVGYQVGLE KTATEDTRLI YMTTGVLLQK IVSAKSLMEF
260 270 280 290 300
THVFIDEVHE RTEEMDFLLL VVRKLLRTNS RFVKVILMSA TINCKQFADY
310 320 330 340 350
FAVPVQNKMN PAYVFEVEGK PHTIEQYYLN DLGHIYHSGL PPYRLEEPVI
360 370 380 390 400
TKDVYEVAVS LIQMFDDLDM KESGNKTWSG AQFVSERSSV LVFLPGLGEI
410 420 430 440 450
NYMHELLTNM IHKRLQVYPL HSSVTLEEQN NVFLSPVPGY RKIILSTNIA
460 470 480 490 500
ESSVTVPDVK YVIDFCLTRT LVCDEDTNYQ SLRLSWASKT SCDQRKGRAG
510 520 530 540 550
RVSKGYCYRL IHRDFWDSAI PDHVVPEMLR CPLGSTVLKV KLLDMGEPRA
560 570 580 590 600
LLATALSPPS LSDIERTILL LKEVGALAVS GQREDENPHD GELTFLGRVL
610 620 630 640 650
AQLPVSQQLG KLIVLGHVFG CLDECLIIAA ALSLKNFFTM PFRQHLDGYR
660 670 680 690 700
NKVHFSGSSR SDCLALVEAF RAWQACRQRG ELRHPKDELD WGRLNYIQIK
710 720 730 740 750
RIREVAELYE ELKNRISQFN MFVDPRHPVL DQEYPYKQRF ILQVVLAGAF
760 770 780 790 800
YPNYFTFGQP DEEMAVRELA GRDPKTTVVL KHIPPYGFLY YKQLQSLFRQ
810 820 830 840 850
CGQVKSIVFD GAKAFVEFSR NPTERFKTLP AVNLAVKMSQ LKVSLELSIH
860 870 880 890 900
AAEEIEGKVQ GGSVSKLRNT RVNVDFQKQT VDPMQVSFNT LDRPRTVADL
910 920 930 940 950
LLTVDVTEVV EVGHFWGYRI DERNAELLRQ LTAEINRLEL VPLPIHPHPD
960 970 980 990 1000
LVCLAPFTDY NKESYFRAQI LYVSGNSAEV FFVDYGNRSH VDLDLLREIP
1010 1020 1030 1040 1050
CQLLELPFQA LEFKICKMRP SAKSLICGEH WSGGANGRFA ALVSGCPLLV
1060 1070 1080 1090 1100
KVFSIVHSVL HVDVYRYSGA QDAVNIRDVL IREGYAELAE ESYESKQSYE
1110 1120 1130 1140 1150
VLKGFFAKSV DTMPDGSVSS PMKDDEKHLI QILLESFASN RLGAPNCKAV
1160 1170 1180 1190 1200
LHGPFNPYEL KCHSLTRISK FRCVWIEKES INSVVISDSP ADLHQRMLVA
1210 1220 1230 1240 1250
ASLSVNETGS TMLLRETSLM PHIPGLPALL SMLFAPVMEL RVDREGKCYT
1260 1270 1280 1290 1300
GVLCGLGWNS TTEAPILPEH DIELAFDVCF NVEDIVEINI LRAAINKLAC
1310 1320 1330 1340 1350
DGPHGPKYLG PERIAQLQEN ARQKLLGLFC RLKPREKITP QWHEKPYEWN
1360 1370 1380
QVDPRLVIEQ AEREGGPGKS TCLYQLHTPV VLSP
Length:1,384
Mass (Da):156,156
Last modified:March 2, 2010 - v3
Checksum:i2EA55FD2520DFE32
GO
Isoform 2 (identifier: Q3MHU3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-837: Missing.
     908-908: E → EVALCAHTLLLQ

Note: No experimental confirmation available.
Show »
Length:558
Mass (Da):62,518
Checksum:i51D43919A38B6CCC
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 837837Missing in isoform 2. 1 PublicationVSP_033556Add
BLAST
Alternative sequencei908 – 9081E → EVALCAHTLLLQ in isoform 2. 1 PublicationVSP_033557

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR03050289 Genomic DNA. No translation available.
AABR03048647 Genomic DNA. No translation available.
AABR03049552 Genomic DNA. No translation available.
AABR03049859 Genomic DNA. No translation available.
AABR03050293 Genomic DNA. No translation available.
AABR03051941 Genomic DNA. No translation available.
BC104675 mRNA. Translation: AAI04676.1.
RefSeqiXP_001072421.2. XM_001072421.4. [Q3MHU3-1]
XP_008763208.1. XM_008764986.1. [Q3MHU3-1]
UniGeneiRn.126122.

Genome annotation databases

EnsembliENSRNOT00000086594; ENSRNOP00000073728; ENSRNOG00000053631. [Q3MHU3-1]
GeneIDi299343.
KEGGirno:299343.
UCSCiRGD:1306942. rat. [Q3MHU3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR03050289 Genomic DNA. No translation available.
AABR03048647 Genomic DNA. No translation available.
AABR03049552 Genomic DNA. No translation available.
AABR03049859 Genomic DNA. No translation available.
AABR03050293 Genomic DNA. No translation available.
AABR03051941 Genomic DNA. No translation available.
BC104675 mRNA. Translation: AAI04676.1.
RefSeqiXP_001072421.2. XM_001072421.4. [Q3MHU3-1]
XP_008763208.1. XM_008764986.1. [Q3MHU3-1]
UniGeneiRn.126122.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000017118.

Proteomic databases

PaxDbiQ3MHU3.
PRIDEiQ3MHU3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000086594; ENSRNOP00000073728; ENSRNOG00000053631. [Q3MHU3-1]
GeneIDi299343.
KEGGirno:299343.
UCSCiRGD:1306942. rat. [Q3MHU3-1]

Organism-specific databases

CTDi122402.
RGDi1306942. Tdrd9.

Phylogenomic databases

eggNOGiKOG0920. Eukaryota.
COG1643. LUCA.
GeneTreeiENSGT00760000119189.
HOGENOMiHOG000047965.
InParanoidiQ3MHU3.
KOiK18408.
OMAiDPCRTVY.
OrthoDBiEOG091G17CM.
PhylomeDBiQ3MHU3.
TreeFamiTF324869.

Miscellaneous databases

PROiQ3MHU3.

Gene expression databases

BgeeiENSRNOG00000012792.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR007502. Helicase-assoc_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR002999. Tudor.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF04408. HA2. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00567. TUDOR. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00847. HA2. 1 hit.
SM00490. HELICc. 1 hit.
SM00333. TUDOR. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS50304. TUDOR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTDRD9_RAT
AccessioniPrimary (citable) accession number: Q3MHU3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: March 2, 2010
Last modified: September 7, 2016
This is version 80 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.