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Tdark
POLR2D
DNA-directed RNA polymerase II subunit RPB4

Protein Classes
Protein Summary
Description
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB4 is part of a subcomplex with RPB7 that binds to a pocket formed by RPB1, RPB2 and RPB6 at the base of the clamp element. The RBP4-RPB7 subcomplex seems to lock the clamp via RPB7 in the closed conformation thus preventing double-stranded DNA to enter the active site cleft. The RPB4-RPB7 subcomplex binds single-stranded DNA and RNA (By similarity). This gene encodes the fourth largest subunit of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA in eukaryotes. In yeast, this polymerase subunit is associated with the polymerase under suboptimal growth conditions and may have ...more
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000272645
  • ENSP00000272645
  • ENSG00000144231

Symbol
  • RBP4
  • RPB16
  • HSRBP4
  • HSRPB4
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
biological process
0.95
disease perturbation
0.9
kinase perturbation
0.88
transcription factor perturbation
0.84
histone modification site profile
0.81


Related Tools
Target Illumination GWAS Analytics (TIGA)
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TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
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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.
GlyGen
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GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
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: 4.46   (req: < 5)
Gene RIFs: 3   (req: <= 3)
Antibodies: 174   (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: 4.46   (req: >= 5)
Gene RIFs: 3   (req: > 3)
Antibodies: 174   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 17
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
GWAS Traits (3)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
leukocyte count
1
1
1
33.1
high density lipoprotein cholesterol measurement
1
1
1
11.8
apolipoprotein A 1 measurement
1
1
1
10
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
leukocyte count
1
33.1
high density lipoprotein cholesterol measurement
1
11.8
apolipoprotein A 1 measurement
1
10
Orthologs (13)
1 – 5 of 13
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
RNA polymerase II subunit D
VGNC:8361
100612569
Macaque
RNA polymerase II subunit D
699945
Mouse
MGI:1916491
69241
Rat
RGD:1308565
364834
Dog
RNA polymerase II subunit D
VGNC:44795
483863
Species
Name
OMA
EggNOG
Inparanoid
Chimp
RNA polymerase II subunit D
Macaque
RNA polymerase II subunit D
Mouse
Rat
Dog
RNA polymerase II subunit D
Protein Structure (9 Structures, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-O15514-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 9
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (73)
Abortive elongation of HIV-1 transcript in the absence of Tat (R-HSA-167242)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 5 of 70
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Abortive elongation of HIV-1 transcript in the absence of Tat
Reactome
Activation of HOX genes during differentiation
Reactome
Activation of anterior HOX genes in hindbrain development during early embryogenesis
Reactome
DNA Repair
Reactome
Developmental Biology
Name
Explore in Pharos
Explore in Source
Abortive elongation of HIV-1 transcript in the absence of Tat
Activation of HOX genes during differentiation
Activation of anterior HOX genes in hindbrain development during early embryogenesis
DNA Repair
Developmental Biology
Protein-Protein Interactions (573)
1 – 10 of 573
POLR2M
Tbio
Family:  Enzyme
Novelty:  0.11413088
p_int:  1
Score:  0.858
Data Source:  BioPlex,STRINGDB
RPRD1B
Tbio
Novelty:  0.0444394
p_int:  0.999999987
p_ni:  1.3e-8
Score:  0.98
Data Source:  BioPlex,STRINGDB
POLR2G
Tbio
Family:  Enzyme
Novelty:  0.01235379
p_int:  0.999999802
p_ni:  1.98e-7
Score:  0.999
Data Source:  BioPlex,STRINGDB
RECQL5
Tbio
Family:  Enzyme
Novelty:  0.01558497
p_int:  0.999922341
p_ni:  0.000077658
Score:  0.827
Data Source:  BioPlex,STRINGDB
RPAP2
Tbio
Family:  Enzyme
Novelty:  0.03383659
p_int:  0.999765861
p_ni:  0.000234139
Score:  0.991
Data Source:  BioPlex,STRINGDB
PIH1D1
Tbio
Novelty:  0.10737369
p_int:  0.999298249
p_ni:  0.000700874
p_wrong:  8.77e-7
Score:  0.725
Data Source:  BioPlex,STRINGDB
GPN3
Tbio
Family:  Enzyme
Novelty:  0.13817794
p_int:  0.999249167
p_ni:  0.000750833
Score:  0.804
Data Source:  BioPlex,STRINGDB
RPRD1A
Tbio
Novelty:  0.13521196
p_int:  0.999026448
p_ni:  0.000973542
p_wrong:  1e-8
Score:  0.98
Data Source:  BioPlex,STRINGDB
LMO2
Tbio
Novelty:  0.0038279
p_int:  0.997517528
p_ni:  0.002482468
p_wrong:  4e-9
Score:  0.555
Data Source:  BioPlex,STRINGDB
SYDE1
Tbio
Family:  Enzyme
Novelty:  0.04683299
p_int:  0.995407075
p_ni:  0.004592925
Score:  0.821
Data Source:  BioPlex,STRINGDB
Publication Statistics
PubMed Score  4.46

PubMed score by year
PubTator Score  1.81

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer