UniProt Accession

 RPB4_YEAST; P20433; D6VW44 

Genbank Protein ID

 M27253; X58099; X87371; Z49415; AY557856; BK006943 

Genbank Nucleotide ID

 AAA34996.1; CAA41112.1; CAA60815.1; CAA89435.1; AAS56182.1; DAA08660.1 

Protein Name

 DNA-directed RNA polymerase II subunit RPB4 

Protein Synonyms/Alias

 RNA polymerase II subunit B4; B32; DNA-directed RNA polymerase II 32 kDa polypeptide 

Gene Name

 RPB4 

Gene Synonyms/Alias

 YJL140W; J0654 

Created Date

 July 27, 2013 

Organism

 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) 

NCBI Taxa ID

 559292 

Lysine Modification

Position	Peptide	Type	References
212	DELERILKELSNLET	ubiquitination	[1, 2]

Reference

 [1] Sites of ubiquitin attachment in Saccharomyces cerevisiae.
 Starita LM, Lo RS, Eng JK, von Haller PD, Fields S.
 Proteomics. 2012 Jan;12(2):236-40. [PMID: 22106047]
 [2] Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.
 Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J.
 Nat Methods. 2013 Jul;10(7):676-82. [PMID: 23749301] 

Functional 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. The RPB4-RPB7 subcomplex is necessary for promoter-directed transcription initiation but is not required for recruitment of Pol II to active preinitiation complexes and seems to be dispensable for transcription elongation and termination. The RPB4-RPB7 subcomplex recruits FCP1 to Pol II. Involved in DNA repair of damage in the transcribed strand. RPB4 is dispensable under optimal growth conditions, but becomes essential during heat or cold shock and under nutrient depletion. Suppresses the RBP9-mediated transcription-coupled repair (TCR) subpathway of nucleotide excision repair (NER) but facilitates the RAD26-mediated TCR subpathway. Under stress conditions only, involved in mRNA export to the cytoplasm. Involved in mRNA decay. Promotes or enhances the deadenylation process of specific mRNAs and may recruit PAT1 and the LSM1-7 complex to these mRNAs, thus stimulating their decapping and further decay. 

Sequence Annotation

 MOD_RES 91 91 Phosphothreonine.
 MOD_RES 92 92 Phosphothreonine.  

Keyword

 3D-structure; Complete proteome; Cytoplasm; DNA damage; DNA repair; DNA-directed RNA polymerase; mRNA processing; Nucleus; Phosphoprotein; Reference proteome; Transcription. 

Sequence Source

 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 

Protein Length

 221 AA 

Protein Sequence

Gene Ontology

 GO:0000932; C:cytoplasmic mRNA processing body; IDA:SGD.
 GO:0005665; C:DNA-directed RNA polymerase II, core complex; IDA:SGD.
 GO:0003899; F:DNA-directed RNA polymerase activity; IEA:UniProtKB-KW.
 GO:0000166; F:nucleotide binding; IEA:InterPro.
 GO:0006281; P:DNA repair; IEA:UniProtKB-KW.
 GO:0031990; P:mRNA export from nucleus in response to heat stress; IMP:SGD.
 GO:0000288; P:nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay; IMP:SGD.
 GO:0045948; P:positive regulation of translational initiation; IMP:SGD.
 GO:0034402; P:recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex; IMP:SGD.
 GO:0006367; P:transcription initiation from RNA polymerase II promoter; IDA:SGD. 

Interpro

 IPR010997; HRDC-like.
 IPR005574; RNA_pol_II_Rpb4.
 IPR006590; RNA_pol_II_Rpb4_core. 

Pfam

 PF03874; RNA_pol_Rpb4 

SMART

 SM00657; RPOL4c 

PROSITE

  

PRINTS