Q6GWX0

SS
Gene name
DDX4 (VASA)
Protein name
Probable ATP-dependent RNA helicase DDX4
Names
EC 3.6.4.13 , DEAD box protein 4 , Vasa homolog , Vasa-like protein
Species
Sus scrofa (Pig)
KEGG Pathway
EC number
3.6.4.13: Acting on ATP; involved in cellular and subcellular movement
Protein Class

Descriptions

DEAD-box proteins utilize ATP to bind and remodel RNA and RNA-protein complexes. The Ded1/DDX3 subfamily of DEAD-box proteins is of particular interest as their function during protein translation, are essential for viability, and are frequently altered in human malignancies. <br>There is a unique interdomain interaction between the two ATPase domains (DEAD box helicase domain and helicase domain) in which the C-terminal helicase domain clashes with the RNA-binding surface. Destabilizing this interaction accelerates RNA duplex unwinding, suggesting that it is present in solution and inhibitory for catalysis. The N-terminal extension to the DEAD box helicase interacts with DEAD box helicase domain and C-terminal helicase domain, and stabilizes the autoinhibited state of DDX3X.

Autoinhibitory domains (AIDs)

512-673 (C-terminal helicase domain) SS

Target domain

310-488 (DEAD box helicase domain)

Relief mechanism

Assay

310-488 (DEAD box helicase domain) SS

Target domain

512-673 (C-terminal helicase domain)

Relief mechanism

Assay

230-288 (N-terminal extension) SS

Target domain

310-488 (DEAD box helicase domain);512-673 (C-terminal helicase domain)

Relief mechanism

Assay

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

1 structures for Q6GWX0

Entry ID Method Resolution Chain Position Source
AF-Q6GWX0-F1 Predicted AlphaFoldDB

No variants for Q6GWX0

Variant ID(s) Position Change Description Diseaes Association Provenance
No variants for Q6GWX0

No associated diseases with Q6GWX0

5 regional properties for Q6GWX0

Type Name Position InterPro Accession
conserved_site ATP-dependent RNA helicase DEAD-box, conserved site 442 - 450 IPR000629
domain Helicase, C-terminal domain-like 525 - 673 IPR001650
domain DEAD/DEAH box helicase domain 310 - 488 IPR011545
domain Helicase superfamily 1/2, ATP-binding domain 305 - 516 IPR014001
domain RNA helicase, DEAD-box type, Q motif 286 - 314 IPR014014

Functions

Description
EC Number 3.6.4.13 Acting on ATP; involved in cellular and subcellular movement
Subcellular Localization
  • Cytoplasm
  • Cytoplasm, perinuclear region
  • Component of the meiotic nuage, also named P granule, a germ-cell-specific organelle required to repress transposon activity during meiosis
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category No pathway information available

7 GO annotations of cellular component

Name Definition
chromatoid body A ribonucleoprotein complex found in the cytoplasm of male germ cells, composed of exceedingly thin filaments that are consolidated into a compact mass or into dense strands of varying thickness that branch to form an irregular network. Contains mRNAs, miRNAs, and protein components involved in miRNA processing (such as Argonaute proteins and the endonuclease Dicer) and in RNA decay (such as the decapping enzyme DCP1a and GW182).
cytoplasm The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
P granule A small cytoplasmic, non-membranous RNA/protein complex aggregate in the primordial germ cells of many higher eukaryotes.
perinuclear region of cytoplasm Cytoplasm situated near, or occurring around, the nucleus.
pi-body A P granule that contains the PIWIL2-TDRD1 module, a set of proteins that act in the primary piRNA pathway. The pi-body corresponds to the cementing material between mitochondria found in gonocytes.
piP-body A P granule that contains the PIWIL4-TDRD9 module, a set of proteins that act in the secondary piRNA pathway.

4 GO annotations of molecular function

Name Definition
ATP binding Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
ATP hydrolysis activity Catalysis of the reaction
mRNA binding Binding to messenger RNA (mRNA), an intermediate molecule between DNA and protein. mRNA includes UTR and coding sequences, but does not contain introns.
RNA helicase activity Unwinding of an RNA helix, driven by ATP hydrolysis.

9 GO annotations of biological process

Name Definition
cell differentiation The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
gamete generation The generation and maintenance of gametes in a multicellular organism. A gamete is a haploid reproductive cell.
germ cell development The process whose specific outcome is the progression of an immature germ cell over time, from its formation to the mature structure (gamete). A germ cell is any reproductive cell in a multicellular organism.
male meiosis I A cell cycle process comprising the steps by which a cell progresses through male meiosis I, the first meiotic division in the male germline.
male meiotic nuclear division A cell cycle process by which the cell nucleus divides as part of a meiotic cell cycle in the male germline.
piRNA processing A process leading to the generation of a functional piRNA. piRNAs (Piwi-associated RNAs) are a class of 24- to 30-nucleotide RNAs derived from repeat or complex DNA sequence elements and processed by a Dicer-independent mechanism.
piRNA-mediated retrotransposon silencing by heterochromatin formation A retrotransposon silencing mechanism in which a piRNA triggers heterochromatin assembly. Heterochromatin is a chromatin conformation that is refractory to transcription.
siRNA-mediated retrotransposon silencing by heterochromatin formation A retrotransposon silencing mechanism in which a siRNA triggers heterochromatin assembly. Heterochromatin is a chromatin conformation that is refractory to transcription.
spermatogenesis The developmental process by which male germ line stem cells self renew or give rise to successive cell types resulting in the development of a spermatozoa.

18 homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
Q5W5U4 DDX4 Probable ATP-dependent RNA helicase DDX4 Bos taurus (Bovine) SS
Q6GVM6 DDX3Y ATP-dependent RNA helicase DDX3Y Pan troglodytes (Chimpanzee) SS
O00571 DDX3X ATP-dependent RNA helicase DDX3X Homo sapiens (Human) EV
Q9NQI0 DDX4 Probable ATP-dependent RNA helicase DDX4 Homo sapiens (Human) SS
Q62167 Ddx3x ATP-dependent RNA helicase DDX3X Mus musculus (Mouse) SS
P16381 D1Pas1 Putative ATP-dependent RNA helicase Pl10 Mus musculus (Mouse) SS
Q62095 Ddx3y ATP-dependent RNA helicase DDX3Y Mus musculus (Mouse) SS
Q61496 Ddx4 ATP-dependent RNA helicase DDX4 Mus musculus (Mouse) SS
Q29024 DDX39B Spliceosome RNA helicase DDX39B Sus scrofa (Pig) PR
A6M931 EIF4A3 Eukaryotic initiation factor 4A-III Sus scrofa (Pig) PR
Q2R1M8 Os11g0599500 DEAD-box ATP-dependent RNA helicase 52C Oryza sativa subsp. japonica (Rice) SS
Q6Z4K6 PL10B DEAD-box ATP-dependent RNA helicase 52B Oryza sativa subsp. japonica (Rice) SS
Q75HJ0 PL10A DEAD-box ATP-dependent RNA helicase 37 Oryza sativa subsp. japonica (Rice) SS
D0PV95 laf-1 ATP-dependent RNA helicase laf-1 Caenorhabditis elegans SS
O01836 glh-3 ATP-dependent RNA helicase glh-3 Caenorhabditis elegans PR
Q84W89 RH37 DEAD-box ATP-dependent RNA helicase 37 Arabidopsis thaliana (Mouse-ear cress) SS
Q8LA13 RH11 DEAD-box ATP-dependent RNA helicase 11 Arabidopsis thaliana (Mouse-ear cress) SS
Q9M2F9 RH52 DEAD-box ATP-dependent RNA helicase 52 Arabidopsis thaliana (Mouse-ear cress) SS
10 20 30 40 50 60
MGDEDWEAEI NPHVSSYVPI FEKDGYSGEN GDKFNRTTAS SSEMDDGPSG RDHFMKSGFT
70 80 90 100 110 120
SGRSYGKRDA GESNKRENTS TTGGFGVGKS FGNRGFSNNR FEDGDSSGFW RESTNDCEDN
130 140 150 160 170 180
TTRNRGFSKR GGSRDGNKSE ASGPFRRGGR GSFRGCRGGF GLGSQNSELD PDQGMQRGGG
190 200 210 220 230 240
LFGSGRPAAS DTGNGDTYQS RSGRGRGGYK GLNEEVVTGS GKNSWKSEAE GGESSDTQGP
250 260 270 280 290 300
KVTYIPPPPP EDEDSIFAHY QTGINFDKYD TILVEVSGHD APPAILTFEE ANLCQTLNNN
310 320 330 340 350 360
IAKAGYTKLT PVQKYSIPII LAGRDLMACA QTGSGKTAAF LLPILAHMMH DGITASRFKE
370 380 390 400 410 420
LQEPECIIVA PTRELVNQIY LEARKFSFGT CVRAVVIYGG TQLGHSIRQI VQGCNILCAT
430 440 450 460 470 480
PGRLMDIIGK EKIGLKQIKY LVLDEADRML DMGFGPEMKK LISCPGMPSK EQRQTLMFSA
490 500 510 520 530 540
TFPEEIQRLA AEFLKSNYLF VAVGQVGGAC RDVQQADLQV GQYSKREKLL EILRNIGDER
550 560 570 580 590 600
TMVFVETKKK ADFIATFLCQ EKISTTSIHG DREQREREQA LGDFRFGKCP VLVATSVAAR
610 620 630 640 650 660
GLDIENVQHV INFDLPSTID EYVHRIGRTG RCGNTGRAIS FFDLESDNHL AQPLVKVLTD
670 680 690 700 710 720
AQQDVPAWLE EIAFSTYIPG FSGSTRGNVF ASVDTRKGKS TLNTAGFSSS QAPNPVDDES
WD