Tbio ERCC3 General transcription and DNA repair factor IIH helicase subunit XPB

Protein Summary

Description

ATP-dependent 3'-5' DNA helicase, component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. In NER, TFIIH acts by opening DNA around the lesion to allow the excision of the damaged oligonucleotide and its replacement by a new DNA fragment. The ATPase activity of XPB/ERCC3, but not its helicase activity, is required for DNA opening. In transcription, TFIIH has an essential role in transcription initiation. When the pre-initiation complex (PIC) has been established, TFIIH is required for promoter opening and promoter escape. The ATP-dependent helicase activity of XPB/ERCC3 is required for promoter opening and promoter escape. Phosphorylation of the C-terminal tail (CTD) of the largest subunit of RNA polymerase II by the kinase module CAK controls the initiation of transcription. This gene encodes an ATP-dependent DNA helicase that functions in nucleotide excision repair. The encoded protein is a subunit of basal transcription factor 2 (TFIIH) and, therefore, also functions in class II transcription. Mutations in this gene are associated with Xeroderma pigmentosum B, Cockayne's syndrome, and trichothiodystrophy. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]

Uniprot Accession IDs

• P19447
• Q53QM0
• TFIIH subunit XPB

Gene Name

• ERCC3

Ensembl ID

• ENST00000285398
• ENSP00000285398
• ENSG00000163161

Symbol

• XPB
• XPBC
• XPB
• BTF2
• TTD2
• GTF2H
• RAD25
• TFIIH

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
molecular function	1
biological process	0.97
histone modification site profile	0.9
disease perturbation	0.83
protein domain	0.73

Protein Classes

PANTHER Classes

Protein / Nucleic Acid Binding / Helicase / Dna Helicase / General Transcription And Dna Repair Factor Iih Helicase Subunit Xpb

Protein / Nucleic Acid Binding / Dna Binding Protein / Dna Helicase / General Transcription And Dna Repair Factor Iih Helicase Subunit Xpb

Protein / Hydrolase / General Transcription And Dna Repair Factor Iih Helicase Subunit Xpb

DTO Classes

Protein / Enzyme / Helicase / Dna Helicase / Tfiih Basal Transcription Factor Complex Helicase Xpb Subunit

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: 281.24   (req: < 5)

Gene RIFs: 45   (req: <= 3)

Antibodies: 214   (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: 281.24   (req: >= 5)

Gene RIFs: 45   (req: > 3)

Antibodies: 214   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 45

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 (292)

Explore Interacting Targets

1 – 10 of 292

• See Interactions on String-DB

GTF2H3

Tbio

Novelty:  0.08168167

p_int:  1

Score:  0.999

Data Source:  BioPlex,STRINGDB

GTF2H5

Tbio

Novelty:  0.03493285

p_int:  0.999999998

p_ni:  2e-9

Score:  0.999

Data Source:  BioPlex,STRINGDB

GTF2H1

Tbio

Novelty:  0.01736328

p_int:  0.999999986

p_ni:  1.4e-8

Score:  0.999

Data Source:  BioPlex,STRINGDB

GTF2H4

Tbio

Novelty:  0.03140561

p_int:  0.999999897

p_ni:  1.03e-7

Score:  0.999

Data Source:  BioPlex,STRINGDB

ERCC5

Tchem

Family:  Enzyme

Novelty:  0.00819696

p_int:  0.999999884

p_ni:  1.7e-8

p_wrong:  9.8e-8

Score:  0.999

Data Source:  BioPlex,STRINGDB

CCNH

Tbio

Novelty:  0.00693072

p_int:  0.999999423

p_ni:  5.77e-7

Score:  0.999

Data Source:  BioPlex,STRINGDB

ZNF143

Tbio

Family:  TF

Novelty:  0.00622649

p_int:  0.999996955

p_ni:  0.000002929

p_wrong:  1.16e-7

Score:  0.292

Data Source:  BioPlex,STRINGDB

BCR

Tclin

Novelty:  0.00127709

p_int:  0.999996151

p_ni:  0.000003847

p_wrong:  3e-9

Score:  0.559

Data Source:  BioPlex,STRINGDB

GTF2H2

Tbio

Novelty:  0.02761619

p_int:  0.999966473

p_ni:  0.000033527

Score:  0.999

Data Source:  BioPlex,STRINGDB

FGL1

Tbio

Novelty:  0.02650803

p_int:  0.999502315

p_ni:  0.000497685

Data Source:  BioPlex

Nearest Tclin Targets

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

Pathways (53)

Reactome (47)

KEGG (2)

PathwayCommons (1)

WikiPathways (3)

DNA Repair (R-HSA-73894)

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1 – 5 of 47

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	DNA Repair	306 targets	R-HSA-73894
Reactome	Disease	1105 targets	R-HSA-1643685
Reactome	Dual Incision in GG-NER	41 targets	R-HSA-5696400
Reactome	Dual incision in TC-NER	65 targets	R-HSA-6782135
Reactome	Epigenetic regulation of gene expression	118 targets	R-HSA-212165

Name	Explore in Pharos	Explore in Source
DNA Repair	306 targets	R-HSA-73894
Disease	1105 targets	R-HSA-1643685
Dual Incision in GG-NER	41 targets	R-HSA-5696400
Dual incision in TC-NER	65 targets	R-HSA-6782135
Epigenetic regulation of gene expression	118 targets	R-HSA-212165

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (52)

Functions (11)

Components (7)

Processes (34)

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1 – 10 of 11

GO Term	Evidence	Assigned by
3'-5' DNA helicase activity	Inferred from Direct Assay (IDA)	UniProtKB
ATPase activity	Inferred from Direct Assay (IDA)	UniProtKB
transcription factor binding	Inferred from Direct Assay (IDA)	MGI
protein C-terminus binding	Inferred from Physical Interaction (IPI)	UniProtKB
protein N-terminus binding	Inferred from Physical Interaction (IPI)	UniProtKB
ATP-dependent DNA helicase activity	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
DNA translocase activity	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
DNA binding	Traceable Author Statement (TAS)	UniProtKB
helicase activity	Traceable Author Statement (TAS)	Reactome
damaged DNA binding	Non-traceable Author Statement (NAS)	UniProtKB

Disease Associations (null)

No disease associations found

GWAS Traits (2)

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1 – 2 of 2

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
protein C measurement	EFO_0004633	2	3	4		90.5
self reported educational attainment	EFO_0004784	1	1	1		4

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 2 of 2

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
protein C measurement	EFO_0004633	4		90.5
self reported educational attainment	EFO_0004784	1		4

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
ATP-binding
Cockayne syndrome
Complete proteome
Deafness
Disease mutation
DNA damage
DNA repair
DNA-binding
Dwarfism

GWAS Trait Find Similar Targets

No Header	No Header
protein C measurement
self reported educational attainment

MGI Phenotype Find Similar Targets

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cellular phenotype
homeostasis/metabolism phenotype
integument phenotype
mortality/aging

IDG Resources

No IDG generated resources found

Orthologs (13)

1 – 5 of 13

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Mouse	excision repair cross-complementing rodent repair deficiency, complementation group 3	MGI:95414	13872
Rat	ERCC excision repair 3, TFIIH core complex helicase subunit	RGD:1307139	291703
Dog	ERCC excision repair 3, TFIIH core complex helicase subunit	VGNC:40443	476105
Horse	ERCC excision repair 3, TFIIH core complex helicase subunit	VGNC:51454	100050708
Cow	ERCC excision repair 3, TFIIH core complex helicase subunit	VGNC:28570	507984

Species	Name	OMA	EggNOG	Inparanoid
Mouse	excision repair cross-complementing rodent repair deficiency, complementation group 3
Rat	ERCC excision repair 3, TFIIH core complex helicase subunit
Dog	ERCC excision repair 3, TFIIH core complex helicase subunit
Horse	ERCC excision repair 3, TFIIH core complex helicase subunit
Cow	ERCC excision repair 3, TFIIH core complex helicase subunit

Publication Statistics

PubMed Score 281.24

PubMed score by year

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PubTator Score 114.54

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Related Publications

Text Mined References (138)

GeneRif Annotations (45)

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PMID	Year	Title