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

IPR009025

Source: InterPro

Description

IPR009025 is a DNA-directed RNA polymerase, RBP11-like dimerisation domain.

<p>RNA polymerase (RNAP) II, which is responsible for all mRNA synthesis in eukaryotes, consists of 12 subunits. Subunits Rpb3 and Rpb11 form a heterodimer that is functionally analogous to the archaeal RNAP D/L heterodimer, and the prokaryotic RNAP alpha subunit homodimer. In each case, they play a key role in RNAP assembly by forming a platform on which the catalytic subunits (eukaryotic Rpb1/Rpb2, and prokaryotic beta/beta') can interact [[cite:PUB00013987]]. These different subunits share regions of homology. Rpb11 contains a domain (Rpb11-like domain) that is required for dimerisation, and binds to a homologous region on Rpb3. The Rpb11-like domain in Rpb11 and archaeal L subunits is contiguous, whereas in Rpb3, archaeal D, and prokaryotic alpha subunits ([interpro:IPR011263]), the Rpb11-like domain is interrupted by an insert domain ([interpro:IPR011262]). In the prokaryotic RNAP alpha subunit, the Rpb11-like domain and the insert domain form two subregions of the N-terminal domain.</p> <p>The structure of the Rpb11-like domain consists of a two-layer α/β fold consisting of β(2)-α-β(2)-α. Rpb3 and Rpb11 in yeast RNAP [[cite:PUB00008731], [cite:PUB00013986], [cite:PUB00097382]] have been shown to share a high degree of sequence and structural similarity to the alpha subunit of bacterial RNAP [[cite:PUB00005231], [cite:PUB00011749]].</p>

This description is obtained from EB-eye REST.

Associated GO terms

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
GO:0006351
Biological process Transcription, DNA-templated The cellular synthesis of RNA on a template of DNA.
Subterm of
Part of
GO:0046983
Molecular function Protein dimerization activity The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
Subterm of

Associated Lotus transcripts 14

Transcript Name Description Predicted domains Domain count
Lj0g3v0213949.1
– PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2-like [Cicer arietinum] gi|502102259|ref|XP_004492017.1|
Domains
10
Lj0g3v0333049.1
– PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2-like [Cicer arietinum] gi|502102259|ref|XP_004492017.1|
Domains
10
Lj0g3v0333049.2
– PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2-like [Cicer arietinum] gi|502102259|ref|XP_004492017.1|
Domains
10
Lj0g3v0333059.1
–
Domains
3
Lj3g3v3690050.1
– PREDICTED: DNA-directed RNA polymerase II subunit RPB11 [Glycine max] gi|356531671|ref|XP_003534400.1|
Domains
9
Lj4g3v0654400.1
– PREDICTED: DNA-directed RNA polymerase II subunit RPB3-A-like [Cicer arietinum] gi|502143329|ref|XP_004505300.1|
Domains
5
Lj6g3v0727740.1
– PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC1-like [Cicer arietinum] gi|502086655|ref|XP_004488284.1|
Domains
16
Lj6g3v1752970.1
– PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2-like [Cicer arietinum] gi|502102259|ref|XP_004492017.1|
Domains
10
Ljchlorog3v0010820.1
– RNA polymerase alpha subunit [Lotus japonicus] gi|13518470|ref|NP_084829.1|
Domains
13
LotjaGi1g1v0525600.1
– DNA-directed RNA polymerase; TAIR: AT2G29540.1 RNApolymerase 14 kDa subunit; Swiss-Prot: sp|P97304|RPAC2_MOUSE DNA-directed RNA polymerases I and III subunit RPAC2; TrEMBL-Plants: tr|I3S968|I3S968_LOTJA Uncharacterized protein; Found in the gene: LotjaGi1g1v0525600
Domains
11
LotjaGi3g1v0550300.1
– DNA-directed RNA polymerase; TAIR: AT3G52090.1 DNA-directed RNA polymerase, RBP11-like protein; Swiss-Prot: sp|Q38859|NRPBB_ARATH DNA-directed RNA polymerases II, IV and V subunit 11; TrEMBL-Plants: tr|I3T213|I3T213_LOTJA Uncharacterized protein; Found in the gene: LotjaGi3g1v0550300
Domains
12
LotjaGi3g1v0550300.2
– DNA-directed RNA polymerase; TAIR: AT3G52090.1 DNA-directed RNA polymerase, RBP11-like protein; Swiss-Prot: sp|Q38859|NRPBB_ARATH DNA-directed RNA polymerases II, IV and V subunit 11; TrEMBL-Plants: tr|I3T213|I3T213_LOTJA Uncharacterized protein; Found in the gene: LotjaGi3g1v0550300
Domains
12
LotjaGi3g1v0550300.3
– DNA-directed RNA polymerase; TAIR: AT3G52090.1 DNA-directed RNA polymerase, RBP11-like protein; Swiss-Prot: sp|Q38859|NRPBB_ARATH DNA-directed RNA polymerases II, IV and V subunit 11; TrEMBL-Plants: tr|I3T213|I3T213_LOTJA Uncharacterized protein; Found in the gene: LotjaGi3g1v0550300
Domains
12
LotjaGi6g1v0284900.1
– DNA-directed RNA polymerase; TAIR: AT2G29540.1 RNApolymerase 14 kDa subunit; Swiss-Prot: sp|P97304|RPAC2_MOUSE DNA-directed RNA polymerases I and III subunit RPAC2; TrEMBL-Plants: tr|I3S968|I3S968_LOTJA Uncharacterized protein; Found in the gene: LotjaGi6g1v0284900
Domains
11

Co-occuring domains 1

A list of co-occurring predicted domains within the L. japonicus gene space:

Predicted domain Source Observations Saturation (%)
cd07029 CDD 1 7.14