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Protein

Probable ATP-dependent RNA helicase DDX28

Gene

DDX28

Organism
Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Plays an essential role in facilitating the proper assembly of the mitochondrial large ribosomal subunit and its helicase activity is essential for this function. May be involved in RNA processing or transport. Has RNA and Mg2+-dependent ATPase activity (By similarity).By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi172 – 1798ATPPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

Ribosome biogenesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding, rRNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Probable ATP-dependent RNA helicase DDX28 (EC:3.6.4.13)
Alternative name(s):
Mitochondrial DEAD box protein 28
Gene namesi
Name:DDX28
ORF Names:QccE-21131
OrganismiMacaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
Taxonomic identifieri9541 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniCercopithecidaeCercopithecinaeMacaca

Subcellular locationi

  • Nucleus By similarity
  • Mitochondrion By similarity
  • Mitochondrion matrixmitochondrion nucleoid By similarity
  • Mitosome matrix By similarity

  • Note: Transported between these two compartments. Nuclear localization depends on active RNA polymerase II transcription. Localizes to mitochondrial RNA granules found in close proximity to the mitochondrial nucleoids (By similarity).By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion, Mitochondrion nucleoid, Mitosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 546546Probable ATP-dependent RNA helicase DDX28PRO_0000055034Add
BLAST

Interactioni

Subunit structurei

Monomer. Found in a complex with GRSF1, DHX30, FASTKD2 and FASTKD5. Associates with the 16S mitochondrial rRNA (16S mt-rRNA) and with the mitochondrial ribosome large subunit (39S).By similarity

Structurei

3D structure databases

ProteinModelPortaliQ4R4T6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini159 – 351193Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini377 – 536160Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi3 – 1816Mitochondrial targeting signalSequence analysisAdd
BLAST
Motifi126 – 15631Q motifAdd
BLAST
Motifi180 – 19112Nuclear export signalSequence analysisAdd
BLAST
Motifi286 – 2894DEADBy similarity
Motifi520 – 5234Nuclear localization signalSequence analysis

Sequence similaritiesi

Belongs to the DEAD box helicase family.Curated
Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Phylogenomic databases

HOVERGENiHBG081424.
KOiK20096.

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.
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.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q4R4T6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALSRPVRLF SLVARLILAP RRGLTVRSPD EPLPVVRIPV ALQRQLEQRQ
60 70 80 90 100
SRQRNLPRPV LARPGRLLVS ARRPEFNQPA RLTLGRWESA PLASQGWKSR
110 120 130 140 150
RARRDHFSIE RAQQEAPAVQ KLSSEGNFAD LGLEPRVLHA LQEVAPEVVQ
160 170 180 190 200
PTTVQSNTIP QLLRGRHVLC AAETGSGKTL SYLLPLFQRL MVQPSLDSLR
210 220 230 240 250
IPAPRGLVLV PSRELAQQVQ AVAQPLGRSL GLLVRDLEGG HGMCRIRMQL
260 270 280 290 300
ARQPSADVLV ATPGALWKAL KSRLISLEQL SFLVLDEADT LLDESFLELV
310 320 330 340 350
DCILEKSHIA DGPADLEDRF NPKAQLVLVG ATFPEGVGQL LDKVASPDAV
360 370 380 390 400
TTITSSNLHC IMPHVKQTFL RLKGADKVAE LVHILKHHNR AERTGPSGTV
410 420 430 440 450
LVFCNSSSTV NWLGYILDDH KIQHLRLQGQ MPALMRAGIF QSFQKSSRDI
460 470 480 490 500
LLCTDIASRG LDSTGVELVV NYDFPPTLQD YIHRAGRVGR VGSEVPGTVI
510 520 530 540
SFVTHPWDVS LVQKIELAAR RRRSLPGLVS SVKEPLPQQP DFDKSD
Length:546
Mass (Da):60,402
Last modified:July 19, 2005 - v1
Checksum:i871C28A9DA5EED9E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB169808 mRNA. Translation: BAE01889.1.
RefSeqiNP_001271761.1. NM_001284832.1.
UniGeneiMfa.9007.

Genome annotation databases

GeneIDi101867446.
KEGGimcf:101867446.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB169808 mRNA. Translation: BAE01889.1.
RefSeqiNP_001271761.1. NM_001284832.1.
UniGeneiMfa.9007.

3D structure databases

ProteinModelPortaliQ4R4T6.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi101867446.
KEGGimcf:101867446.

Organism-specific databases

CTDi55794.

Phylogenomic databases

HOVERGENiHBG081424.
KOiK20096.

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.
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.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDDX28_MACFA
AccessioniPrimary (citable) accession number: Q4R4T6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: July 19, 2005
Last modified: July 6, 2016
This is version 49 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Documents

  1. 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.