InnateDB: Systems Biology of the Innate Immune Response

Mus musculus Protein: Polr2a

Summary

InnateDB Protein

IDBP-191828.6

Last Modified

2014-10-13 [Report errors or provide feedback]

Gene Symbol

Polr2a

Protein Name

polymerase (RNA) II (DNA directed) polypeptide A

Synonyms

220kDa; Rpb1; Rpo2-1;

Species

Mus musculus

Ensembl Protein

ENSMUSP00000050771

InnateDB Gene

IDBG-191826 (Polr2a)

Protein Structure

UniProt Annotation

Function

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Largest and catalytic component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Forms the polymerase active center together with the second largest subunit. 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. RPB1 is part of the core element with the central large cleft, the clamp element that moves to open and close the cleft and the jaws that are thought to grab the incoming DNA template. At the start of transcription, a single-stranded DNA template strand of the promoter is positioned within the central active site cleft of Pol II. A bridging helix emanates from RPB1 and crosses the cleft near the catalytic site and is thought to promote translocation of Pol II by acting as a ratchet that moves the RNA-DNA hybrid through the active site by switching from straight to bent conformations at each step of nucleotide addition. During transcription elongation, Pol II moves on the template as the transcript elongates. Elongation is influenced by the phosphorylation status of the C-terminal domain (CTD) of Pol II largest subunit (RPB1), which serves as a platform for assembly of factors that regulate transcription initiation, elongation, termination and mRNA processing (By similarity). {ECO:0000250}.

Subcellular Localization

Nucleus.

Disease Associations

Tissue Specificity

Comments

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 65 experimentally validated interaction(s) in this database.
They are also associated with 207 interaction(s) predicted by orthology.

Experimentally validated
Total	65 [view]
Protein-Protein	47 [view]
Protein-DNA	18 [view]
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	207 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0001055	RNA polymerase II activity
GO:0003677	DNA binding
GO:0003899	DNA-directed RNA polymerase activity
GO:0005515	protein binding
GO:0031625	ubiquitin protein ligase binding
GO:0046872	metal ion binding

Biological Process

GO:0006351	transcription, DNA-templated
GO:0006366	transcription from RNA polymerase II promoter

Cellular Component

GO:0005634	nucleus
GO:0005665	DNA-directed RNA polymerase II, core complex

Protein Structure and Domains

PDB ID

MGI:98086

InterPro

IPR000684 RNA polymerase II, heptapeptide repeat, eukaryotic
IPR000722 RNA polymerase, alpha subunit
IPR006592 RNA polymerase, N-terminal
IPR007066 RNA polymerase Rpb1, domain 3
IPR007073 RNA polymerase Rpb1, domain 7
IPR007075 RNA polymerase Rpb1, domain 6
IPR007080 RNA polymerase Rpb1, domain 1
IPR007081 RNA polymerase Rpb1, domain 5
IPR007083 RNA polymerase Rpb1, domain 4

PFAM