Q61496

SS
Gene name
Ddx4 (Mvh, Vasa)
Protein name
ATP-dependent RNA helicase DDX4
Names
EC 3.6.4.13 , DEAD box protein 4 , Mvh , Vasa homolog
Species
Mus musculus (Mouse)
KEGG Pathway
mmu:13206
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)

487-648 (C-terminal helicase domain) SS

Target domain

285-463 (DEAD box helicase domain)

Relief mechanism

Assay

285-463 (DEAD box helicase domain) SS

Target domain

487-648 (C-terminal helicase domain)

Relief mechanism

Assay

205-263 (N-terminal extension) SS

Target domain

285-463 (DEAD box helicase domain);487-648 (C-terminal helicase domain)

Relief mechanism

Assay

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

2 structures for Q61496

Entry ID Method Resolution Chain Position Source
5JIU X-ray 205 A C/D 201-220 PDB
AF-Q61496-F1 Predicted AlphaFoldDB

28 variants for Q61496

Variant ID(s) Position Change Description Diseaes Association Provenance
rs3389300243 21 V>I No EVA
rs3389295863 153 G>D No EVA
rs226415036 212 S>I No EVA
rs3389306445 305 A>V No EVA
rs3403961989 347 T>P No EVA
rs3389305190 417 V>D No EVA
rs3389320710 435 K>N No EVA
rs3389260205 449 Q>L No EVA
rs3389320766 452 L>* No EVA
rs46091551 467 D>E No EVA
rs50992989 472 S>N No EVA
rs3389295915 495 V>A No EVA
rs3389303933 500 K>E No EVA
rs3404765443 530 A>E No EVA
rs3404661494 531 T>I No EVA
rs3404655883 533 L>F No EVA
rs3404639653 533 L>P No EVA
rs3404765427 534 C>* No EVA
rs3389299972 547 R>G No EVA
rs3411918377 554 Q>H No EVA
rs3404639650 554 Q>L No EVA
rs3389286258 555 A>P No EVA
rs3389269064 623 N>K No EVA
rs3389318659 649 F>C No EVA
rs3389299960 652 Y>H No EVA
rs3389318751 680 H>L No EVA
rs3389260267 684 T>I No EVA
rs3389305158 685 A>S No EVA

No associated diseases with Q61496

4 regional properties for Q61496

Type Name Position InterPro Accession
domain 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain 330 - 659 IPR002073
domain HD/PDEase domain 403 - 587 IPR003607
conserved_site 3'5'-cyclic nucleotide phosphodiesterase, conserved site 446 - 457 IPR023174
domain Phosphodiesterase 4 upstream conserved regions (UCR) 166 - 281 IPR040844

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

9 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.
cytosol The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
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.
ribonucleoprotein complex A macromolecular complex that contains both RNA and protein molecules.

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.

11 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.
regulation of protein localization Any process that modulates the frequency, rate or extent of any process in which a protein is transported to, or maintained in, a specific location.
secondary piRNA processing A process leading to the generation of a functional secondary piRNA, involving a self-perpetuating piRNA loop, often called the ping-pong cycle, in which piRNAs are amplified by pairing with complementary transcripts (for example the transposable element mRNA target). In Drosophila, the processing involves the piwi proteins aubergine and Argonaute 3 and in mice, the piwi proteins Piwil2 and Piwil4.
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.

25 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
P16381 D1Pas1 Putative ATP-dependent RNA helicase Pl10 Mus musculus (Mouse) SS
Q62095 Ddx3y ATP-dependent RNA helicase DDX3Y Mus musculus (Mouse) SS
Q62167 Ddx3x ATP-dependent RNA helicase DDX3X Mus musculus (Mouse) SS
Q99MJ9 Ddx50 ATP-dependent RNA helicase DDX50 Mus musculus (Mouse) PR
Q91VC3 Eif4a3 Eukaryotic initiation factor 4A-III Mus musculus (Mouse) PR
Q9Z1N5 Ddx39b Spliceosome RNA helicase Ddx39b Mus musculus (Mouse) PR
Q9QY15 Ddx25 ATP-dependent RNA helicase DDX25 Mus musculus (Mouse) PR
Q61655 Ddx19a ATP-dependent RNA helicase DDX19A Mus musculus (Mouse) SS
Q501J6 Ddx17 Probable ATP-dependent RNA helicase DDX17 Mus musculus (Mouse) PR
Q8VDW0 Ddx39a ATP-dependent RNA helicase DDX39A Mus musculus (Mouse) PR
Q91VN6 Ddx41 Probable ATP-dependent RNA helicase DDX41 Mus musculus (Mouse) PR
Q61656 Ddx5 Probable ATP-dependent RNA helicase DDX5 Mus musculus (Mouse) PR
Q6GWX0 DDX4 Probable ATP-dependent RNA helicase DDX4 Sus scrofa (Pig) SS
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 LKPHVSSYVP VFEKDKYSSG ANGDTFNRTS ASSDIGESSK KENTSTTGGF
70 80 90 100 110 120
GRGKGFGNRG FLNNKFEEGD SSGFWKESNN DCEDNQTRSR GFSKRGGCQD GNDSEASGPF
130 140 150 160 170 180
RRGGRGSFRG CRGGFGLGRP NSESDQDQGT QRGGGLFGSR KPAASDSGNG DTYQSRSGSG
190 200 210 220 230 240
RGGYKGLNEE VVTGSGKNSW KSETEGGESS DSQGPKVTYI PPPPPEDEDS IFAHYQTGIN
250 260 270 280 290 300
FDKYDTILVE VSGHDAPPAI LTFEEANLCQ TLNNNIAKAG YTKLTPVQKY SIPIVLAGRD
310 320 330 340 350 360
LMACAQTGSG KTAAFLLPIL AHMMRDGITA SRFKELQEPE CIIVAPTREL INQIYLEARK
370 380 390 400 410 420
FSFGTCVRAV VIYGGTQFGH SVRQIVQGCN ILCATPGRLM DIIGKEKIGL KQVKYLVLDE
430 440 450 460 470 480
ADRMLDMGFG PEMKKLISCP GMPSKEQRQT LLFSATFPEE IQRLAGDFLK SSYLFVAVGQ
490 500 510 520 530 540
VGGACRDVQQ TILQVGQYSK REKLVEILRN IGDERTMVFV ETKKKADFIA TFLCQEKIST
550 560 570 580 590 600
TSIHGDREQR EREQALGDFR CGKCPVLVAT SVAARGLDIE NVQHVINFDL PSTIDEYVHR
610 620 630 640 650 660
IGRTGRCGNT GRAISFFDTD SDNHLAQPLV KVLSDAQQDV PAWLEEIAFS TYVPPSFSSS
670 680 690 700
TRGGAVFASV DTRKNYQGKH TLNTAGISSS QAPNPVDDES WD