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Protein

Tudor and KH domain-containing protein

Gene

Tdrkh

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Participates in the primary piRNA biogenesis pathway and is required during spermatogenesis to repress transposable elements and prevent their mobilization, which is essential for the germline integrity. The piRNA metabolic process 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. Required for the final steps of primary piRNA biogenesis by participating in the processing of 31-37 nt intermediates into mature piRNAs. May act in pi-bodies and piP-bodies by transferring piRNA precursors or intermediates to or between these granules.1 Publication

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRNA-binding
Biological processDifferentiation, RNA-mediated gene silencing, Spermatogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Tudor and KH domain-containing protein
Alternative name(s):
Tudor domain-containing protein 2
Gene namesi
Name:Tdrkh
Synonyms:Tdrd2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 3

Organism-specific databases

MGIiMGI:1919884 Tdrkh

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Mitochondrion

Pathology & Biotechi

Disruption phenotypei

Male mice are sterile due to defects in male meiosis, piRNA production defects, DNA demethylation of LINE-1 (L1) transposable elements and an increase in L1 expression in the adult testis. Mutants have severely reduced levels of mature piRNAs and accumulate 1'U-containing, 2'O-methylated 31-37 nt RNAs that complement the missing mature piRNAs.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000501421 – 560Tudor and KH domain-containing proteinAdd BLAST560

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki65Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki76Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki110Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki112Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki152Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki175Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki181Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki187Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki193Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki256Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki267Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Modified residuei278PhosphoserineBy similarity1
Cross-linki479Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki510Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki529Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity

Post-translational modificationi

Ubiquitinated by PRKN during mitophagy, leading to its degradation and enhancement of mitophagy. Deubiquitinated by USP30.By similarity

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ80VL1
MaxQBiQ80VL1
PaxDbiQ80VL1
PRIDEiQ80VL1

PTM databases

iPTMnetiQ80VL1
PhosphoSitePlusiQ80VL1
SwissPalmiQ80VL1

Expressioni

Tissue specificityi

Highly expressed in testis, present at lower level in brain. Weakly or not expressed in other tissues (at protein level).1 Publication

Developmental stagei

Present at low level in male gonads in postnatal day 7 (P7) Expressed at higher level in P14, P21 and adult testes, correlating with the onset of meiosis (at protein level). Expressed in spermatogonia, spermatocytes and round spermatids, but not in elongating spermatids.2 Publications

Gene expression databases

BgeeiENSMUSG00000041912 Expressed in 179 organ(s), highest expression level in oocyte
CleanExiMM_TDRKH
ExpressionAtlasiQ80VL1 baseline and differential
GenevisibleiQ80VL1 MM

Interactioni

Subunit structurei

Interacts with (symmetrically methylated) PIWIL1, PIWIL2 and PIWIL4.3 Publications

Protein-protein interaction databases

IntActiQ80VL1, 1 interactor
MINTiQ80VL1
STRINGi10090.ENSMUSP00000041002

Structurei

Secondary structure

1560
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ80VL1
SMRiQ80VL1
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ80VL1

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini52 – 115KH 1PROSITE-ProRule annotationAdd BLAST64
Domaini124 – 190KH 2PROSITE-ProRule annotationAdd BLAST67
Domaini353 – 412TudorPROSITE-ProRule annotationAdd BLAST60

Sequence similaritiesi

Belongs to the Tdrkh family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG2279 Eukaryota
ENOG410Z0DP LUCA
GeneTreeiENSGT00730000110295
HOGENOMiHOG000037932
HOVERGENiHBG055309
InParanoidiQ80VL1
KOiK18406
OMAiMEVYVSA
OrthoDBiEOG091G00Z5
PhylomeDBiQ80VL1
TreeFamiTF318292

Family and domain databases

Gene3Di2.40.50.90, 1 hit
3.30.1370.10, 2 hits
InterProiView protein in InterPro
IPR004087 KH_dom
IPR004088 KH_dom_type_1
IPR036612 KH_dom_type_1_sf
IPR035437 SNase_OB-fold_sf
IPR002999 Tudor
PfamiView protein in Pfam
PF00013 KH_1, 2 hits
PF00567 TUDOR, 1 hit
SMARTiView protein in SMART
SM00322 KH, 2 hits
SM00333 TUDOR, 1 hit
SUPFAMiSSF54791 SSF54791, 2 hits
PROSITEiView protein in PROSITE
PS50084 KH_TYPE_1, 2 hits
PS50304 TUDOR, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

This entry has 1 described isoform and 5 potential isoforms that are computationally mapped.Show allAlign All

Q80VL1-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSTERTSWTN LSTIQKIALG LGIPASATVA YILYRRYRES REERLTFVGE
60 70 80 90 100
DDIEIEMRVP QEAVKLIIGR QGANIKQLRK QTGARIDVDT EDVGDERVLL
110 120 130 140 150
ISGFPVQVCK AKAAIHQILT ENTPVFEQLS VPQRSVGRII GRGGETIRSI
160 170 180 190 200
CKASGAKITC DKESEGTLLL SRLIKISGTQ KEVAAAKHLI LEKVSEDEEL
210 220 230 240 250
RKRIAHSAET RVPRKQPISV RREEVTEPGG AGEAALWKNT NSSMGPATPL
260 270 280 290 300
EVPLRKGGGD MVVVGPKEGS WEKPNDDSFQ NSGAQSSPET SMFEIPSPDF
310 320 330 340 350
SFHADEYLEV YVSASEHPNH FWIQIIGSRS LQLDKLVSEM TQHYENSLPE
360 370 380 390 400
DLTVHVGDIV AAPLSTNGSW YRARVLGTLE NGNLDLYFVD FGDNGDCALK
410 420 430 440 450
DLRALRSDFL SLPFQAIECS LARIAPTGEE WEEEALDEFD RLTHCADWKP
460 470 480 490 500
LVAKISSYVQ TGISTWPKIY LYDTSDEKKL DIGLELVRKG YAVELPEDME
510 520 530 540 550
ENRTVPNMLK DMATETDDSL ASILTETKKS PEEMPHTLSC LSLSEAASMS
560
GDDNLEDDLF
Length:560
Mass (Da):62,134
Last modified:June 1, 2003 - v1
Checksum:i57AB7B6F56D33128
GO

Computationally mapped potential isoform sequencesi

There are 5 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0G2JFE0A0A0G2JFE0_MOUSE
Tudor and KH domain-containing prot...
Tdrkh
515Annotation score:
A0A0G2JFB2A0A0G2JFB2_MOUSE
Tudor and KH domain-containing prot...
Tdrkh
556Annotation score:
A0A0G2JE08A0A0G2JE08_MOUSE
Tudor and KH domain-containing prot...
Tdrkh
296Annotation score:
A0A0G2JFP5A0A0G2JFP5_MOUSE
Tudor and KH domain-containing prot...
Tdrkh
140Annotation score:
A0A0G2JEH9A0A0G2JEH9_MOUSE
Tudor and KH domain-containing prot...
Tdrkh
50Annotation score:

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
GL456099 Genomic DNA No translation available.
BC049363 mRNA Translation: AAH49363.1
CCDSiCCDS38534.1
RefSeqiNP_082583.1, NM_028307.1
XP_006502201.1, XM_006502138.3
XP_017175235.1, XM_017319746.1
UniGeneiMm.331198
Mm.470795

Genome annotation databases

EnsembliENSMUST00000045245; ENSMUSP00000041002; ENSMUSG00000041912
ENSMUST00000166032; ENSMUSP00000129635; ENSMUSG00000041912
ENSMUST00000197901; ENSMUSP00000142561; ENSMUSG00000041912
GeneIDi72634
KEGGimmu:72634
UCSCiuc008qge.1 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
GL456099 Genomic DNA No translation available.
BC049363 mRNA Translation: AAH49363.1
CCDSiCCDS38534.1
RefSeqiNP_082583.1, NM_028307.1
XP_006502201.1, XM_006502138.3
XP_017175235.1, XM_017319746.1
UniGeneiMm.331198
Mm.470795

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1WE8NMR-A118-208[»]
ProteinModelPortaliQ80VL1
SMRiQ80VL1
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ80VL1, 1 interactor
MINTiQ80VL1
STRINGi10090.ENSMUSP00000041002

PTM databases

iPTMnetiQ80VL1
PhosphoSitePlusiQ80VL1
SwissPalmiQ80VL1

Proteomic databases

EPDiQ80VL1
MaxQBiQ80VL1
PaxDbiQ80VL1
PRIDEiQ80VL1

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000045245; ENSMUSP00000041002; ENSMUSG00000041912
ENSMUST00000166032; ENSMUSP00000129635; ENSMUSG00000041912
ENSMUST00000197901; ENSMUSP00000142561; ENSMUSG00000041912
GeneIDi72634
KEGGimmu:72634
UCSCiuc008qge.1 mouse

Organism-specific databases

CTDi11022
MGIiMGI:1919884 Tdrkh

Phylogenomic databases

eggNOGiKOG2279 Eukaryota
ENOG410Z0DP LUCA
GeneTreeiENSGT00730000110295
HOGENOMiHOG000037932
HOVERGENiHBG055309
InParanoidiQ80VL1
KOiK18406
OMAiMEVYVSA
OrthoDBiEOG091G00Z5
PhylomeDBiQ80VL1
TreeFamiTF318292

Miscellaneous databases

EvolutionaryTraceiQ80VL1
PROiPR:Q80VL1
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000041912 Expressed in 179 organ(s), highest expression level in oocyte
CleanExiMM_TDRKH
ExpressionAtlasiQ80VL1 baseline and differential
GenevisibleiQ80VL1 MM

Family and domain databases

Gene3Di2.40.50.90, 1 hit
3.30.1370.10, 2 hits
InterProiView protein in InterPro
IPR004087 KH_dom
IPR004088 KH_dom_type_1
IPR036612 KH_dom_type_1_sf
IPR035437 SNase_OB-fold_sf
IPR002999 Tudor
PfamiView protein in Pfam
PF00013 KH_1, 2 hits
PF00567 TUDOR, 1 hit
SMARTiView protein in SMART
SM00322 KH, 2 hits
SM00333 TUDOR, 1 hit
SUPFAMiSSF54791 SSF54791, 2 hits
PROSITEiView protein in PROSITE
PS50084 KH_TYPE_1, 2 hits
PS50304 TUDOR, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiTDRKH_MOUSE
AccessioniPrimary (citable) accession number: Q80VL1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 13, 2004
Last sequence update: June 1, 2003
Last modified: November 7, 2018
This is version 122 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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