Tbio RABGGTB Geranylgeranyl transferase type-2 subunit beta

Protein Summary

Description

Catalyzes the transfer of a geranylgeranyl moiety from geranylgeranyl diphosphate to both cysteines of Rab proteins with the C-terminal sequence -XXCC, -XCXC and -CCXX, such as RAB1A, RAB3A, RAB5A and RAB7A. This gene encodes the beta-subunit of the enzyme Rab geranylgeranyl-transferase (RabGGTase), which belongs to the protein prenyltransferase family. RabGGTase catalyzes the post-translational addition of geranylgeranyl groups to C-terminal cysteine residues of Rab GTPases. Three small nucleolar RNA genes are present in the intronic regions of this gene. Alternately spliced transcript variants have been observed for this gene. A pseudogene associated with this gene is located on chromosome 3. [provided by RefSeq, Jan 2013]

Uniprot Accession IDs

• P53611
• Q92697

Gene Name

• RABGGTB

Ensembl ID

• ENST00000319942
• ENSP00000317473
• ENSG00000137955

Symbol

• GGTB
• GGTB

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
virus perturbation	0.88
disease perturbation	0.83
molecular function	0.7
transcription factor binding site profile	0.69
kinase perturbation	0.66

Protein Classes

PANTHER Classes

Protein / Transferase / Acyltransferase / Geranylgeranyl Transferase Type-2 Subunit Beta

DTO Classes

Protein / Enzyme / Transferase / Acyltransferase / Geranylgeranyl Transferase Type-2 Subunit Beta

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: 14.93   (req: < 5)

Gene RIFs: 3   (req: <= 3)

Antibodies: 57   (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: 14.93   (req: >= 5)

Gene RIFs: 3   (req: > 3)

Antibodies: 57   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 9

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

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Expression Data (0 Tissues)

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No expression data found

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Target Illumination GWAS Analytics (TIGA)

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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 (142)

Explore Interacting Targets

1 – 10 of 142

• See Interactions on String-DB

PTAR1

Tdark

Family:  Enzyme

Novelty:  0.37120559

p_int:  0.999999996

p_ni:  1e-9

p_wrong:  3e-9

Score:  0.705

Data Source:  BioPlex,STRINGDB

RABGGTA

Tdark

Family:  Enzyme

Novelty:  0.19962321

p_int:  0.999999994

p_ni:  6e-9

Score:  0.999

Data Source:  BioPlex,Reactome,STRINGDB

PGBD5

Tdark

Novelty:  0.15960609

p_int:  0.999999991

p_ni:  1e-9

p_wrong:  8e-9

Score:  0.23

Data Source:  BioPlex,STRINGDB

RAB40B

Tbio

Novelty:  0.2288213

p_int:  0.999999988

p_ni:  1.2e-8

Score:  0.937

Data Source:  BioPlex,STRINGDB

PXN

Tbio

Novelty:  0.00082031

p_int:  0.999999662

p_ni:  3.37e-7

Score:  0.173

Data Source:  BioPlex,STRINGDB

NCOA1

Tchem

Family:  Epigenetic

Novelty:  0.00344663

p_int:  0.999998645

p_ni:  0.000001354

p_wrong:  1e-9

Data Source:  BioPlex

PIP5K1C

Tchem

Family:  Kinase

Novelty:  0.0323077

p_int:  0.999995354

p_ni:  1.5e-8

p_wrong:  0.000004631

Score:  0.66

Data Source:  BioPlex,STRINGDB

PIP5K1A

Tbio

Family:  Kinase

Novelty:  0.05039085

p_int:  0.999995006

p_ni:  0.000004993

p_wrong:  1e-9

Data Source:  BioPlex

PPP1R16A

Tdark

Family:  Enzyme

Novelty:  0.1958289

p_int:  0.999992673

p_ni:  1.3e-8

p_wrong:  0.000007314

Score:  0.23

Data Source:  BioPlex,STRINGDB

INPP5A

Tchem

Family:  Enzyme

Novelty:  0.03249263

p_int:  0.999983032

p_ni:  0.000016967

p_wrong:  1e-9

Data Source:  BioPlex

Nearest Tclin Targets

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

Pathways (10)

Reactome (9)

PathwayCommons (1)

Gene expression (Transcription) (R-HSA-74160)

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5

1 – 5 of 9

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Generic Transcription Pathway	1195 targets	R-HSA-212436
Reactome	Metabolism of proteins	2050 targets	R-HSA-392499
Reactome	Post-translational protein modification	1450 targets	R-HSA-597592
Reactome	RAB geranylgeranylation	66 targets	R-HSA-8873719

Name	Explore in Pharos	Explore in Source
Gene expression (Transcription)	1452 targets	R-HSA-74160
Generic Transcription Pathway	1195 targets	R-HSA-212436
Metabolism of proteins	2050 targets	R-HSA-392499
Post-translational protein modification	1450 targets	R-HSA-597592
RAB geranylgeranylation	66 targets	R-HSA-8873719

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (12)

Functions (3)

Components (3)

Processes (6)

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Items per page:

10

1 – 3 of 3

GO Term	Evidence	Assigned by
Rab geranylgeranyltransferase activity	Inferred from Sequence or structural Similarity (ISS)	UniProtKB
Rab GTPase binding	Inferred from Sequence or structural Similarity (ISS)	UniProtKB
zinc ion binding	Inferred from Sequence or structural Similarity (ISS)	UniProtKB

Disease Associations ()

No disease associations found

GWAS Traits (5)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 5

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
blood metabolite measurement	EFO_0005664	2	2	3		88.4
glycine measurement	EFO_0009767	3	2	3		82.6
serum metabolite measurement	EFO_0005653	2	2	5		81.1
urinary metabolite measurement	EFO_0005116	1	1	1		31.2
chronotype measurement	EFO_0008328	1	1	1		24.5

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 5

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
blood metabolite measurement	EFO_0005664	3		88.4
glycine measurement	EFO_0009767	3		82.6
serum metabolite measurement	EFO_0005653	5		81.1
urinary metabolite measurement	EFO_0005116	1		31.2
chronotype measurement	EFO_0008328	1		24.5

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
Acetylation
Complete proteome
Metal-binding
Phosphoprotein
Prenyltransferase
Reference proteome
Repeat
Transferase
Zinc

GWAS Trait Find Similar Targets

No Header	No Header
blood metabolite measurement
chronotype measurement
glycine measurement
serum metabolite measurement
urinary metabolite measurement

IDG Resources

No IDG generated resources found

Orthologs (16)

1 – 5 of 16

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	Rab geranylgeranyltransferase subunit beta	VGNC:6972	100614714
Macaque	Rab geranylgeranyltransferase beta subunit		705421
Mouse	Rab geranylgeranyl transferase, b subunit	MGI:99537	19352
Rat	Rab geranylgeranyltransferase subunit beta	RGD:3530	25533
Dog	Rab geranylgeranyltransferase subunit beta	VGNC:45304	612683

Species	Name	OMA	EggNOG	Inparanoid
Chimp	Rab geranylgeranyltransferase subunit beta
Macaque	Rab geranylgeranyltransferase beta subunit
Mouse	Rab geranylgeranyl transferase, b subunit
Rat	Rab geranylgeranyltransferase subunit beta
Dog	Rab geranylgeranyltransferase subunit beta

Publication Statistics

PubMed Score 14.93

PubMed score by year

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PubTator Score 4.20

PubTator score by year

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Related Publications

Text Mined References (28)

GeneRif Annotations (3)

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10

0 of 0

PMID	Year	Title