Tbio DDX28 Probable ATP-dependent RNA helicase DDX28

Protein Summary

Description

Plays an essential role in facilitating the proper assembly of the mitochondrial large ribosomal subunit and its helicase activity is essential for this function (PubMed:25683708, PubMed:25683715). May be involved in RNA processing or transport. Has RNA and Mg(2+)-dependent ATPase activity (PubMed:11350955). DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases. They are implicated in a number of cellular processes involving alteration of RNA secondary structure, such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Based on their distribution patterns, some members of the DEAD box protein family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. This gene is intronless. It encodes an RNA-dependent ATPase. The encoded protein is localized in the mitochondria and the nucleus, and can be transported between the mitochondria and the nucleus. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• Q9NUL7

Gene Name

• DDX28

Ensembl ID

• ENST00000332395
• ENSP00000332340
• ENSG00000182810

Symbol

• MDDX28
• MDDX28

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
molecular function	0.94
virus perturbation	0.94
interacting protein	0.81
transcription factor binding site profile	0.8
kinase perturbation	0.76

Protein Classes

No PANTHER Classes or DTO Classes found

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 6.09   (req: < 5)

Gene RIFs: 4   (req: <= 3)

Antibodies: 144   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 6.09   (req: >= 5)

Gene RIFs: 4   (req: > 3)

Antibodies: 144   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 5

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Expression Data (0 Tissues)

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No expression data found

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Related Tools (4)

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (0)

No active ligands found

Protein-Protein Interactions (276)

Explore Interacting Targets

1 – 10 of 276

• See Interactions on String-DB

RPUSD4

Tdark

Family:  Enzyme

Novelty:  0.39210095

p_int:  0.999764421

p_ni:  0.000235571

p_wrong:  9e-9

Score:  0.924

Data Source:  BioPlex,STRINGDB

METAP2

Tchem

Family:  Enzyme

Novelty:  0.00570955

p_int:  0.998678105

p_ni:  0.001321895

Score:  0.201

Data Source:  BioPlex,STRINGDB

TRUB2

Tdark

Family:  Enzyme

Novelty:  0.4130414

p_int:  0.993332265

p_ni:  0.006667735

Score:  0.897

Data Source:  BioPlex,STRINGDB

PTCD1

Tdark

Novelty:  0.17182155

p_int:  0.991013588

p_ni:  0.008986412

Score:  0.789

Data Source:  BioPlex,STRINGDB

MTERF3

Tdark

Novelty:  0.06316581

p_int:  0.970896368

p_ni:  0.029103632

Score:  0.813

Data Source:  BioPlex,STRINGDB

MALSU1

Tbio

Novelty:  0.38026342

p_int:  0.958705397

p_ni:  0.041294572

p_wrong:  3.1e-8

Score:  0.799

Data Source:  BioPlex,STRINGDB

YARS2

Tbio

Family:  Enzyme

Novelty:  0.00522139

p_int:  0.95813719

p_ni:  0.04186281

Score:  0.666

Data Source:  BioPlex,STRINGDB

MCAT

Tbio

Family:  Enzyme

Novelty:  0.00600508

p_int:  0.944553145

p_ni:  0.055446855

Score:  0.791

Data Source:  BioPlex,STRINGDB

UBR5

Tbio

Family:  Enzyme

Novelty:  0.00608732

p_int:  0.933824916

p_ni:  0.066175084

Score:  0.239

Data Source:  BioPlex,STRINGDB

NGRN

Tbio

Novelty:  0.11162143

p_int:  0.933223614

p_ni:  0.066775388

p_wrong:  9.98e-7

Score:  0.609

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (0)

No pathways found

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (11)

Functions (4)

Components (6)

Processes (1)

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GO Term	Evidence	Assigned by
rRNA binding	Inferred from Direct Assay (IDA)	UniProtKB
RNA binding	Inferred from High Throughput Direct Assay (HDA)	UniProtKB
ATP binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW
helicase activity	Inferred from Electronic Annotation (IEA)	UniProtKB-KW

Disease Associations (null)

No disease associations found

GWAS Traits (12)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 12

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
high density lipoprotein cholesterol measurement	EFO_0004612	12	14	23	10	99.1
apolipoprotein A 1 measurement	EFO_0004614	1	4	4		97.4
red blood cell density measurement	EFO_0007978	1	1	1		82.3
mean corpuscular volume	EFO_0004526	1	1	1		80.5
total cholesterol measurement	EFO_0004574	2	3	3		78.4

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 5 of 12

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
high density lipoprotein cholesterol measurement	EFO_0004612	23	10	99.1
apolipoprotein A 1 measurement	EFO_0004614	4		97.4
red blood cell density measurement	EFO_0007978	1		82.3
mean corpuscular volume	EFO_0004526	1		80.5
total cholesterol measurement	EFO_0004574	3		78.4

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
ATP-binding
Complete proteome
Helicase
Hydrolase
Mitochondrion
Mitochondrion nucleoid
Nucleotide-binding
Nucleus
Polymorphism
Reference proteome

GWAS Trait Find Similar Targets

No Header	No Header
apolipoprotein A 1 measurement
appendicular lean mass
eosinophil count
high density lipoprotein cholesterol measurement
low density lipoprotein cholesterol measurement
mathematical ability
mean corpuscular volume
red blood cell density measurement
self reported educational attainment
sleep duration

IDG Resources

No IDG generated resources found

Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	DEAD-box helicase 28	VGNC:13695	454183
Macaque	DEAD-box helicase 28		701929
Mouse	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	MGI:1919236	71986
Rat	DEAD-box helicase 28	RGD:1311976	364995
Dog	DEAD-box helicase 28	VGNC:39853	489747

Species	Name	OMA	EggNOG	Inparanoid
Chimp	DEAD-box helicase 28
Macaque	DEAD-box helicase 28
Mouse	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28
Rat	DEAD-box helicase 28
Dog	DEAD-box helicase 28

Publication Statistics

PubMed Score 6.09

PubMed score by year

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PubTator Score 3.70

PubTator score by year

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Related Publications

Text Mined References (16)

GeneRif Annotations (4)

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PMID	Year	Title