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Protein

ATP-dependent RNA helicase DDX3Y

Gene

DDX3Y

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Probable ATP-dependent RNA helicase. May play a role in spermatogenesis.

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi198 – 205ATPPROSITE-ProRule annotation8
Nucleotide bindingi222 – 229ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000067048-MONOMER.
BRENDAi3.6.4.13. 2681.

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent RNA helicase DDX3Y (EC:3.6.4.13)
Alternative name(s):
DEAD box protein 3, Y-chromosomal
Gene namesi
Name:DDX3Y
Synonyms:DBY
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome Y

Organism-specific databases

HGNCiHGNC:2699. DDX3Y.

Subcellular locationi

  • Cytoplasm 1 Publication
  • Nucleus 1 Publication

  • Note: Shuttles between the nucleus and the cytoplasm in an XPO1-dependent manner.

GO - Cellular componenti

  • cytoplasm Source: HPA
  • cytoplasmic ribonucleoprotein granule Source: GO_Central
  • membrane Source: UniProtKB
  • nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Involvement in diseasei

DDX3Y is located in the 'azoospermia factor a' (AZFa) region on chromosome Y which is deleted in Sertoli cell-only syndrome. This is an infertility disorder in which no germ cells are visible in seminiferous tubules leading to azoospermia.

Organism-specific databases

DisGeNETi8653.
MalaCardsiDDX3Y.
OpenTargetsiENSG00000067048.
Orphaneti1646. Partial chromosome Y deletion.
PharmGKBiPA27168.

Polymorphism and mutation databases

BioMutaiDDX3Y.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000550112 – 660ATP-dependent RNA helicase DDX3YAdd BLAST659

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1
Modified residuei55N6-acetyllysineBy similarity1
Modified residuei85PhosphoserineBy similarity1
Modified residuei89PhosphoserineBy similarity1
Modified residuei100Omega-N-methylarginineBy similarity1
Modified residuei101PhosphoserineBy similarity1
Modified residuei103PhosphotyrosineBy similarity1
Modified residuei109Omega-N-methylarginineBy similarity1
Modified residuei129PhosphoserineBy similarity1
Modified residuei181PhosphoserineBy similarity1
Cross-linki213Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei454PhosphoserineBy similarity1
Modified residuei590Omega-N-methylarginineBy similarity1
Modified residuei592PhosphoserineBy similarity1
Modified residuei603PhosphoserineBy similarity1
Modified residuei615Omega-N-methylarginineBy similarity1
Modified residuei630Omega-N-methylarginineBy similarity1

Keywords - PTMi

Acetylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiO15523.
PaxDbiO15523.
PeptideAtlasiO15523.
PRIDEiO15523.

PTM databases

iPTMnetiO15523.
PhosphoSitePlusiO15523.
SwissPalmiO15523.

Expressioni

Tissue specificityi

Testis-specific. Expressed predominantly in spermatogonia.1 Publication

Gene expression databases

BgeeiENSG00000067048.
CleanExiHS_DDX3Y.
ExpressionAtlasiO15523. baseline and differential.
GenevisibleiO15523. HS.

Organism-specific databases

HPAiHPA005631.

Interactioni

Subunit structurei

May interact with TDRD3.

Protein-protein interaction databases

BioGridi114204. 18 interactors.
IntActiO15523. 16 interactors.
MINTiMINT-2999090.
STRINGi9606.ENSP00000336725.

Structurei

3D structure databases

ProteinModelPortaliO15523.
SMRiO15523.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini209 – 401Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST193
Domaini412 – 573Helicase C-terminalPROSITE-ProRule annotationAdd BLAST162

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi178 – 206Q motifAdd BLAST29
Motifi345 – 348DEAD box4

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiKOG0335. Eukaryota.
ENOG410XNTI. LUCA.
GeneTreeiENSGT00770000120531.
HOGENOMiHOG000268804.
HOVERGENiHBG015893.
InParanoidiO15523.
KOiK17642.
OMAiRYACTSI.
OrthoDBiEOG091G04U3.
PhylomeDBiO15523.
TreeFamiTF300364.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O15523-1) [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
MSHVVVKNDP ELDQQLANLD LNSEKQSGGA STASKGRYIP PHLRNREASK
60 70 80 90 100
GFHDKDSSGW SCSKDKDAYS SFGSRDSRGK PGYFSERGSG SRGRFDDRGR
110 120 130 140 150
SDYDGIGNRE RPGFGRFERS GHSRWCDKSV EDDWSKPLPP SERLEQELFS
160 170 180 190 200
GGNTGINFEK YDDIPVEATG SNCPPHIENF SDIDMGEIIM GNIELTRYTR
210 220 230 240 250
PTPVQKHAIP IIKGKRDLMA CAQTGSGKTA AFLLPILSQI YTDGPGEALK
260 270 280 290 300
AVKENGRYGR RKQYPISLVL APTRELAVQI YEEARKFSYR SRVRPCVVYG
310 320 330 340 350
GADIGQQIRD LERGCHLLVA TPGRLVDMME RGKIGLDFCK YLVLDEADRM
360 370 380 390 400
LDMGFEPQIR RIVEQDTMPP KGVRHTMMFS ATFPKEIQML ARDFLDEYIF
410 420 430 440 450
LAVGRVGSTS ENITQKVVWV EDLDKRSFLL DILGATGSDS LTLVFVETKK
460 470 480 490 500
GADSLEDFLY HEGYACTSIH GDRSQRDREE ALHQFRSGKS PILVATAVAA
510 520 530 540 550
RGLDISNVRH VINFDLPSDI EEYVHRIGRT GRVGNLGLAT SFFNEKNMNI
560 570 580 590 600
TKDLLDLLVE AKQEVPSWLE NMAYEHHYKG GSRGRSKSNR FSGGFGARDY
610 620 630 640 650
RQSSGSSSSG FGASRGSSSR SGGGGYGNSR GFGGGGYGGF YNSDGYGGNY
660
NSQGVDWWGN
Length:660
Mass (Da):73,154
Last modified:August 16, 2005 - v2
Checksum:i0C370E9367952AB6
GO
Isoform 2 (identifier: O15523-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-15: MSHVVVKNDPELDQQ → MEIGRPRKDTWK

Note: No experimental confirmation available.
Show »
Length:657
Mass (Da):72,931
Checksum:iD31DEC552AAF75DB
GO
Isoform 3 (identifier: O15523-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     287-291: FSYRS → VKYSF
     292-660: Missing.

Note: No experimental confirmation available.
Show »
Length:291
Mass (Da):32,416
Checksum:iB8B67E2C8E5C208B
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti46R → K in AAC51832 (PubMed:9381176).Curated1
Sequence conflicti46R → K in AAC51831 (PubMed:9381176).Curated1
Sequence conflicti219M → V in AAC51832 (PubMed:9381176).Curated1
Sequence conflicti219M → V in AAC51831 (PubMed:9381176).Curated1
Sequence conflicti628N → D in AAC51832 (PubMed:9381176).Curated1
Sequence conflicti628N → D in AAC51831 (PubMed:9381176).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0554561 – 15MSHVV…ELDQQ → MEIGRPRKDTWK in isoform 2. 1 PublicationAdd BLAST15
Alternative sequenceiVSP_055457287 – 291FSYRS → VKYSF in isoform 3. 1 Publication5
Alternative sequenceiVSP_055458292 – 660Missing in isoform 3. 1 PublicationAdd BLAST369

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF000985 mRNA. Translation: AAC51832.1.
AF000984 mRNA. Translation: AAC51831.1.
AK296366 mRNA. Translation: BAG59041.1.
AK302172 mRNA. Translation: BAG63539.1.
AC004474 Genomic DNA. No translation available.
BC034942 mRNA. Translation: AAH34942.1.
CCDSiCCDS14782.1. [O15523-1]
RefSeqiNP_001116137.1. NM_001122665.3. [O15523-1]
NP_001289481.1. NM_001302552.2. [O15523-2]
NP_004651.2. NM_004660.4. [O15523-1]
UniGeneiHs.99120.

Genome annotation databases

EnsembliENST00000336079; ENSP00000336725; ENSG00000067048. [O15523-1]
ENST00000360160; ENSP00000353284; ENSG00000067048. [O15523-1]
GeneIDi8653.
KEGGihsa:8653.
UCSCiuc004fsu.2. human. [O15523-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF000985 mRNA. Translation: AAC51832.1.
AF000984 mRNA. Translation: AAC51831.1.
AK296366 mRNA. Translation: BAG59041.1.
AK302172 mRNA. Translation: BAG63539.1.
AC004474 Genomic DNA. No translation available.
BC034942 mRNA. Translation: AAH34942.1.
CCDSiCCDS14782.1. [O15523-1]
RefSeqiNP_001116137.1. NM_001122665.3. [O15523-1]
NP_001289481.1. NM_001302552.2. [O15523-2]
NP_004651.2. NM_004660.4. [O15523-1]
UniGeneiHs.99120.

3D structure databases

ProteinModelPortaliO15523.
SMRiO15523.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114204. 18 interactors.
IntActiO15523. 16 interactors.
MINTiMINT-2999090.
STRINGi9606.ENSP00000336725.

PTM databases

iPTMnetiO15523.
PhosphoSitePlusiO15523.
SwissPalmiO15523.

Polymorphism and mutation databases

BioMutaiDDX3Y.

Proteomic databases

MaxQBiO15523.
PaxDbiO15523.
PeptideAtlasiO15523.
PRIDEiO15523.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000336079; ENSP00000336725; ENSG00000067048. [O15523-1]
ENST00000360160; ENSP00000353284; ENSG00000067048. [O15523-1]
GeneIDi8653.
KEGGihsa:8653.
UCSCiuc004fsu.2. human. [O15523-1]

Organism-specific databases

CTDi8653.
DisGeNETi8653.
GeneCardsiDDX3Y.
GeneReviewsiDDX3Y.
HGNCiHGNC:2699. DDX3Y.
HPAiHPA005631.
MalaCardsiDDX3Y.
MIMi400010. gene.
neXtProtiNX_O15523.
OpenTargetsiENSG00000067048.
Orphaneti1646. Partial chromosome Y deletion.
PharmGKBiPA27168.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0335. Eukaryota.
ENOG410XNTI. LUCA.
GeneTreeiENSGT00770000120531.
HOGENOMiHOG000268804.
HOVERGENiHBG015893.
InParanoidiO15523.
KOiK17642.
OMAiRYACTSI.
OrthoDBiEOG091G04U3.
PhylomeDBiO15523.
TreeFamiTF300364.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000067048-MONOMER.
BRENDAi3.6.4.13. 2681.

Miscellaneous databases

ChiTaRSiDDX3Y. human.
GeneWikiiDDX3Y.
GenomeRNAii8653.
PROiO15523.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000067048.
CleanExiHS_DDX3Y.
ExpressionAtlasiO15523. baseline and differential.
GenevisibleiO15523. HS.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDDX3Y_HUMAN
AccessioniPrimary (citable) accession number: O15523
Secondary accession number(s): B4DK29, B4DXX7, Q8IYV7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1999
Last sequence update: August 16, 2005
Last modified: November 2, 2016
This is version 162 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome Y
    Human chromosome Y: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  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.