Tdark TRMT13 tRNA:m(4)X modification enzyme TRM13 homolog

Protein Summary

Description

tRNA methylase which 2'-O-methylates cytidine(4) in tRNA(Pro) and tRNA(Gly)(GCC), and adenosine(4) in tRNA(His).

Uniprot Accession IDs

• Q9NUP7
• Q5VVL0
• Q9NW65

Gene Name

• TRMT13

Ensembl ID

• ENST00000370141
• ENSP00000359160
• ENSG00000122435
• ENST00000482437
• ENSP00000432616

Symbol

• CCDC76
• CCDC76

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
histone modification site profile	0.79
cellular component	0.64
tissue sample	0.64
transcription factor perturbation	0.61
transcription factor binding site profile	0.6

Related Tools

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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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: 0.08   (req: < 5)

Gene RIFs: 0   (req: <= 3)

Antibodies: 39   (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: 0.08   (req: >= 5)

Gene RIFs: 0   (req: > 3)

Antibodies: 39   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 4

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

Orthologs (16)

1 – 5 of 16

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	tRNA methyltransferase 13 homolog	VGNC:9423	742372
Macaque	tRNA methyltransferase 13 homolog		711396
Mouse	tRNA methyltransferase 13	MGI:1925219	229780
Rat	tRNA methyltransferase 13 homolog	RGD:1565211	499697
Dog	tRNA methyltransferase 13 homolog	VGNC:54082	479930

Species	Name	OMA	EggNOG	Inparanoid
Chimp	tRNA methyltransferase 13 homolog
Macaque	tRNA methyltransferase 13 homolog
Mouse	tRNA methyltransferase 13
Rat	tRNA methyltransferase 13 homolog
Dog	tRNA methyltransferase 13 homolog

Protein Structure (0 Structures, 1 AlphaFold Model)

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

AF-Q9NUP7-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

Pathways (3)

Reactome (3)

Metabolism of RNA (R-HSA-8953854)

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Items per page:

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1 – 3 of 3

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Metabolism of RNA	686 targets	R-HSA-8953854
Reactome	tRNA modification in the nucleus and cytosol	43 targets	R-HSA-6782315
Reactome	tRNA processing	123 targets	R-HSA-72306

Name	Explore in Pharos	Explore in Source
Metabolism of RNA	686 targets	R-HSA-8953854
tRNA modification in the nucleus and cytosol	43 targets	R-HSA-6782315
tRNA processing	123 targets	R-HSA-72306

Gene Ontology Terms (4)

Functions (3)

Processes (1)

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Items per page:

10

1 – 3 of 3

GO Term	Evidence	Assigned by
tRNA methyltransferase activity	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
metal ion binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW
tRNA 2'-O-methyltransferase activity	Inferred from Electronic Annotation (IEA)	InterPro

Protein-Protein Interactions (34)

Explore Interacting Targets

1 – 10 of 34

• See Interactions on String-DB

STAG1

Tbio

Novelty: 0.00122511

p_int: 0.998637963

p_ni: 0.000494664

p_wrong: 0.000867373

Score: 0.305

Data Source: BioPlex,STRINGDB

AGO1

Tbio

Novelty: 0.00157424

p_int: 0.996574534

p_ni: 0.003393883

p_wrong: 0.000031584

Data Source: BioPlex

OSER1

Tdark

Novelty: 0.21052793

p_int: 0.820940853

p_ni: 0.000512059

p_wrong: 0.178547088

Score: 0.359

Data Source: BioPlex,STRINGDB

SAYSD1

Tdark

Novelty: 0.62764863

Score: 0.767

Data Source: STRINGDB

C5orf22

Tdark

Novelty: 1.29325352

Score: 0.753

Data Source: STRINGDB

TPGS2

Tdark

Family: Enzyme

Novelty: 0.45018261

Score: 0.749

Data Source: STRINGDB

CHAMP1

Tbio

Novelty: 0.09520274

Score: 0.667

Data Source: STRINGDB

PIGH

Tbio

Family: Enzyme

Novelty: 0.0584561

Score: 0.667

Data Source: STRINGDB

LRRC8B

Tbio

Novelty: 0.16457267

Score: 0.66

Data Source: STRINGDB

NXT2

Tdark

Novelty: 0.03767394

Score: 0.655

Data Source: STRINGDB

Publication Statistics

PubMed Score  0.08

PubMed score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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UniProt Keyword Find Similar Targets

Acetylation
Alternative splicing
Coiled coil
Complete proteome
Metal-binding
Methyltransferase
Polymorphism
Reference proteome
S-adenosyl-L-methionine
Transferase