D0PV95

SS
Gene name
laf-1 (Y71H2AM.19)
Protein name
ATP-dependent RNA helicase laf-1
Names
EC 3.6.4.13 , DEAD-box RNA helicase laf-1
Species
Caenorhabditis elegans
KEGG Pathway
cel:CELE_Y71H2AM.19
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)

465-626 (C-terminal helicase domain) SS

Target domain

255-441 (DEAD box helicase domain)

Relief mechanism

Assay

255-441 (DEAD box helicase domain) SS

Target domain

465-626 (C-terminal helicase domain)

Relief mechanism

Assay

183-233 (N-terminal extension) SS

Target domain

255-441 (DEAD box helicase domain);465-626 (C-terminal helicase domain)

Relief mechanism

Assay

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

1 structures for D0PV95

Entry ID Method Resolution Chain Position Source
AF-D0PV95-F1 Predicted AlphaFoldDB

No variants for D0PV95

Variant ID(s) Position Change Description Diseaes Association Provenance
No variants for D0PV95

No associated diseases with D0PV95

14 regional properties for D0PV95

Type Name Position InterPro Accession
domain Protein kinase domain 621 - 884 IPR000719
domain Ephrin receptor ligand binding domain 20 - 202 IPR001090
domain Serine-threonine/tyrosine-protein kinase, catalytic domain 622 - 880 IPR001245
conserved_site Tyrosine-protein kinase, receptor class V, conserved site 178 - 198 IPR001426-1
conserved_site Tyrosine-protein kinase, receptor class V, conserved site 241 - 261 IPR001426-2
domain Sterile alpha motif domain 910 - 977 IPR001660
domain Fibronectin type III 324 - 434 IPR003961-1
domain Fibronectin type III 435 - 530 IPR003961-2
active_site Tyrosine-protein kinase, active site 742 - 754 IPR008266
domain Tyrosine-protein kinase ephrin type A/B receptor-like 268 - 302 IPR011641
binding_site Protein kinase, ATP binding site 627 - 653 IPR017441
domain Tyrosine-protein kinase, catalytic domain 621 - 880 IPR020635
domain Ephrin receptor, transmembrane domain 544 - 617 IPR027936
domain Ephrin type-B receptor 2, ligand binding domain 19 - 196 IPR034238

Functions

Description
EC Number 3.6.4.13 Acting on ATP; involved in cellular and subcellular movement
Subcellular Localization
  • Cytoplasm
  • Cytoplasmic granule
  • Nucleus
  • Cytoplasm, Stress granule
  • Inflammasome
  • Cell membrane
  • Cell projection, lamellipodium
  • Localizes to P granules in germline precursor cells
  • Shuttles between the nucleus and the cytosol (By similarity)
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category No pathway information available

8 GO annotations of cellular component

Name Definition
canonical inflammasome complex A cytosolic protein complex that is capable of activating caspase-1.
cell leading edge The area of a motile cell closest to the direction of movement.
cytoplasm The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
cytoplasmic stress granule A dense aggregation in the cytosol composed of proteins and RNAs that appear when the cell is under stress.
lamellipodium A thin sheetlike process extended by the leading edge of a migrating cell or extending cell process; contains a dense meshwork of actin filaments.
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.
plasma membrane The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

7 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
identical protein binding Binding to an identical protein or proteins.
molecular condensate scaffold activity Binding and bringing together two or more macromolecules in contact, permitting those molecules to organize as a molecular condensate.
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.
RNA strand annealing activity An activity that facilitates the formation of a complementary double-stranded RNA molecule.

7 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.
masculinization of hermaphroditic germ-line The determination of male sex and sexual phenotype in the germ-line of the hermaphrodite. An example of this is found in Caenorhabditis elegans.
negative regulation of gene expression Any process that decreases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA).
positive regulation of embryonic development Any process that activates or increases the frequency, rate or extent of embryonic development.
positive regulation of fertilization Any process that activates or increases the frequency, rate or extent of fertilization.
regulation of translation Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.

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
Q9NQI0 DDX4 Probable ATP-dependent RNA helicase DDX4 Homo sapiens (Human) SS
O15523 DDX3Y ATP-dependent RNA helicase DDX3Y Homo sapiens (Human) SS
O00571 DDX3X ATP-dependent RNA helicase DDX3X Homo sapiens (Human) EV
Q61496 Ddx4 ATP-dependent RNA helicase DDX4 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
Q62167 Ddx3x ATP-dependent RNA helicase DDX3X Mus musculus (Mouse) SS
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
O01836 glh-3 ATP-dependent RNA helicase glh-3 Caenorhabditis elegans PR
Q18212 hel-1 Spliceosome RNA helicase DDX39B homolog Caenorhabditis elegans PR
Q84W89 RH37 DEAD-box ATP-dependent RNA helicase 37 Arabidopsis thaliana (Mouse-ear cress) SS
Q9M2F9 RH52 DEAD-box ATP-dependent RNA helicase 52 Arabidopsis thaliana (Mouse-ear cress) SS
Q8LA13 RH11 DEAD-box ATP-dependent RNA helicase 11 Arabidopsis thaliana (Mouse-ear cress) SS
10 20 30 40 50 60
MESNQSNNGG SGNAALNRGG RYVPPHLRGG DGGAAAAASA GGDDRRGGAG GGGYRRGGGN
70 80 90 100 110 120
SGGGGGGGYD RGYNDNRDDR DNRGGSGGYG RDRNYEDRGY NGGGGGGGNR GYNNNRGGGG
130 140 150 160 170 180
GGYNRQDRGD GGSSNFSRGG YNNRDEGSDN RGSGRSYNND RRDNGGDGQN TRWNNLDAPP
190 200 210 220 230 240
SRGTSKWENR GARDERIEQE LFSGQLSGIN FDKYEEIPVE ATGDDVPQPI SLFSDLSLHE
250 260 270 280 290 300
WIEENIKTAG YDRPTPVQKY SIPALQGGRD LMSCAQTGSG KTAAFLVPLV NAILQDGPDA
310 320 330 340 350 360
VHRSVTSSGG RKKQYPSALV LSPTRELSLQ IFNESRKFAY RTPITSALLY GGRENYKDQI
370 380 390 400 410 420
HKLRLGCHIL IATPGRLIDV MDQGLIGMEG CRYLVLDEAD RMLDMGFEPQ IRQIVECNRM
430 440 450 460 470 480
PSKEERITAM FSATFPKEIQ LLAQDFLKEN YVFLAVGRVG STSENIMQKI VWVEEDEKRS
490 500 510 520 530 540
YLMDLLDATG DSSLTLVFVE TKRGASDLAY YLNRQNYEVV TIHGDLKQFE REKHLDLFRT
550 560 570 580 590 600
GTAPILVATA VAARGLDIPN VKHVINYDLP SDVDEYVHRI GRTGRVGNVG LATSFFNDKN
610 620 630 640 650 660
RNIARELMDL IVEANQELPD WLEGMSGDMR SGGGYRGRGG RGNGQRFGGR DHRYQGGSGN
670 680 690 700
GGGGNGGGGG FGGGGQRSGG GGGFQSGGGG GRQQQQQQRA QPQQDWWS