Your browser is unable to support new features implemented in HTML5 and CSS3 to render this site as intended. Your experience may suffer from functionality degradation but the site should remain usable. We strongly recommend the latest version of Google Chrome, OS X Safari or Mozilla Firefox. As Safari is bundled with OS X, if you are unable to upgrade to a newer version of OS X, we recommend using an open source browser. Dismiss message
IPR006110 is a RNA polymerase, subunit omega/Rpo6/RPB6.
<p>In eukaryotes, there are three different forms of DNA-dependent RNA polymerases ([ec:2.7.7.6]) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. A component of 14 to 18kDa shared by all three forms of eukaryotic RNA polymerases and which has been sequenced in budding yeast (gene RPB6 or RPO26), in Schizosaccharomyces pombe (Fission yeast) (gene rpb6 or rpo15), in human and in African swine fever virus (ASFV) is evolutionary related to the archaebacterial subunit Rpo6 (also known as subunit K). The archaebacterial protein is colinear with the C-terminal part of the eukaryotic subunit.</p> <p>The structures of the omega subunit and RBP6, and the structures of the omega/beta' and RPB6/RPB1 interfaces, suggest a molecular mechanism for the function of omega and RPB6 in promoting RNAP assembly and/or stability. The conserved regions of omega and RPB6 form a compact structural domain that interacts simultaneously with conserved regions of the largest RNAP subunit and with the C-terminal tail following a conserved region of the largest RNAP subunit. The second half of the conserved region of omega and RPB6 forms an arc that projects away from the remainder of the structural domain and wraps over and around the C-terminal tail of the largest RNAP subunit, clamping it in a crevice, and threading the C-terminal tail of the largest RNAP subunit through the narrow gap between omega and RPB6 [[cite:PUB00007936]].</p>
This description is obtained from EB-eye REST.
GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .
| GO term | Namespace | Name | Definition | Relationships |
|---|---|---|---|---|
| Molecular function | DNA binding | Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). | ||
| Molecular function | DNA-directed 5'-3' RNA polymerase activity | Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template, i.e. the catalysis of DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'. | ||
| Biological process | Transcription, DNA-templated | The cellular synthesis of RNA on a template of DNA. |
| Transcript | Name | Description | Predicted domains | Domain count |
|---|---|---|---|---|
| – | PREDICTED: DNA-directed RNA polymerases I, II, and III subunit RPABC2-like [Glycine max] gi|356535896|ref|XP_003536478.1| | 15 | ||
| – | PREDICTED: DNA-directed RNA polymerases I, II, and III subunit RPABC2-like [Glycine max] gi|356535896|ref|XP_003536478.1| | 15 | ||
| – | RNA polymerase Rpb6 [Arabidopsis thaliana] gi|15242235|ref|NP_200007.1| | 12 | ||
| – | DNA-directed RNA polymerase II family protein; TAIR: AT5G51940.1 RNA polymerase Rpb6; Swiss-Prot: sp|Q9FJ98|RPD6A_ARATH DNA-directed RNA polymerases II, IV and V subunit 6A; TrEMBL-Plants: tr|I3RZV1|I3RZV1_LOTJA Uncharacterized protein; Found in the gene: LotjaGi1g1v0057700 | 17 | ||
| – | DNA-directed RNA polymerase II family protein; TAIR: AT5G51940.1 RNA polymerase Rpb6; Swiss-Prot: sp|Q9FJ98|RPD6A_ARATH DNA-directed RNA polymerases II, IV and V subunit 6A; TrEMBL-Plants: tr|I3RZV1|I3RZV1_LOTJA Uncharacterized protein; Found in the gene: LotjaGi2g1v0343700 | 17 |
A list of co-occurring predicted domains within the L. japonicus gene space:
| Predicted domain | Source | Observations | Saturation (%) |
|---|---|---|---|
| mobidb-lite | MobiDBLite | 1 | 20.00 |