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protein coding gene - rpb6 (SPCC1020.04c) - DNA-directed RNA polymerase I, II and III subunit Rpb6

Gene summary

Standard name
rpb6
Systematic ID
SPCC1020.04c
Product
DNA-directed RNA polymerase I, II and III subunit Rpb6
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
rpo15
UniProt ID
P36595
ORFeome ID
07/07D07
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome III: 783037..784077 forward strand

Annotation

Complementation

PBO:0123322 - functionally complements S. cerevisiae RPB6

References:

GO biological process

GO:0006354 - DNA-templated transcription elongation

References:

GO:0042790 - nucleolar large rRNA transcription by RNA polymerase I

References:

GO:0006366 - transcription by RNA polymerase II

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GO:0006362 - transcription elongation by RNA polymerase I

References:

GO:0006361 - transcription initiation at RNA polymerase I promoter

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GO:0042797 - tRNA transcription by RNA polymerase III

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GO cellular component

GO:0005829 - cytosol

References:

GO:0005634 - nucleus

References:

GO:0005736 - RNA polymerase I complex

References:

GO:0005665 - RNA polymerase II, core complex

References:

GO:0016591 - RNA polymerase II, holoenzyme

References:

GO:0005666 - RNA polymerase III complex

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GO molecular function

GO:0003677 - DNA binding

References:

GO:0003899 - DNA-directed RNA polymerase activity

References:

GO:0005515 - protein binding

References:

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:00047 - O-phospho-L-threonine

References:

MOD:01148 - ubiquitinylated lysine

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Multi-locus phenotype

FYPO:0007786 - elongated cell with cell cycle arrest at meiotic G2/MI transition

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Genotypes:

FYPO:0000084 - sensitive to 6-azauracil

References:

Genotypes:

Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

References:

PomGeneEx:0000021 - protein present

References:

PomGeneEx:0000012 - RNA level decreased

References:

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0000311 - inviable after spore germination with normal, unseptated germ tube morphology

References:

Genotypes:

FYPO:0002151 - inviable spore

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0000084 - sensitive to 6-azauracil

References:

Genotypes:

Taxonomic conservation

PBO:0011067 - conserved in bacteria

PBO:0011065 - conserved in eukaryotes

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Protein features

IDNameInterPro nameDB name
PF01192RNA_pol_Rpb6Pol_omega/Rpo6/RPB6Pfam
PS01111RNA_POL_K_14KDDNA-dir_RNA_polK_14-18kDa_CSPROSITE patterns
SM01409RNA_pol_Rpb6Pol_omega/Rpo6/RPB6SMART
G3DSA:3.90.940.10:FF:000004CATH-FunFam
G3DSA:3.90.940.10RPB6/omega-like_sfCATH-Gene3D
SSF63562RPB6/omega-like_sfSUPERFAMILY
PTHR47227PANTHER
PIRSF000778RpoK/RPB6Rpo6/Rpb6PIRSF
PIRSF500154RPB6RPB6PIRSF
NF002207PRK01099.1-2NCBIFAM
NF002208PRK01099.1-3NCBIFAM
MF_00192RNApol_arch_Rpo6Rpo6/Rpb6HAMAP
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Negative-Polyelectrolytedisorder_predictionMobiDB-Negative-Polyelectrolyte
mobidb-lite-Polardisorder_predictionMobiDB-Polar

Orthologs

References / Literature

PMID:28241144 - Mediator structure and rearrangements required for holoenzyme formation.
Tsai KL et al. Nature 2017 Apr 13;544(7649):196-201
PMID:10648788 - Involvement of multiple subunit-subunit contacts in the assembly of RNA polymerase II.
Kimura M et al. Nucleic Acids Res 2000 Feb 15;28(4):952-9
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:33536435 - Conserved strategies of RNA polymerase I hibernation and activation.
Heiss FB et al. Nat Commun 2021 Feb 03;12(1):758
PMID:15743411 - Studies of Schizosaccharomyces pombe TFIIE indicate conformational and functional changes in RNA polymerase II at transcription initiation.
Hayashi K et al. Genes Cells 2005 Mar;10(3):207-24
PMID:9548938 - Location of subunit-subunit contact sites on RNA polymerase II subunit 3 from the fission yeast Schizosaccharomyces pombe.
Yasui K et al. Biochemistry 1998 Apr 21;37(16):5542-8
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:16537923 - Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast.
Todd BL et al. Mol Cell Biol 2006 Apr;26(7):2817-31
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:39367033 - Quantitative proteomics and phosphoproteomics profiling of meiotic divisions in the fission yeast Schizosaccharomyces pombe.
Sivakova B et al. Sci Rep 2024 Oct 04;14(1):23105
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
PMID:27984744 - Survival in Quiescence Requires the Euchromatic Deployment of Clr4/SUV39H by Argonaute-Associated Small RNAs.
Joh RI et al. Mol Cell 2016 Dec 15;64(6):1088-1101
PMID:19458260 - Schizosacharomyces pombe RNA polymerase II at 3.6-A resolution.
Spåhr H et al. Proc Natl Acad Sci U S A 2009 Jun 09;106(23):9185-90
GO_REF:0000002 - Comments
PMID:39746995 - DSIF factor Spt5 coordinates transcription, maturation and exoribonucleolysis of RNA polymerase II transcripts.
Kuś K et al. Nat Commun 2025 Jan 02;16(1):10
PMID:10625684 - Purification and characterization of RNA polymerase II holoenzyme from Schizosaccharomyces pombe.
Spåhr H et al. J Biol Chem 2000 Jan 14;275(2):1351-6
PMID:29996109 - Quantitative Phosphoproteomics Reveals the Signaling Dynamics of Cell-Cycle Kinases in the Fission Yeast Schizosaccharomyces pombe.
Swaffer MP et al. Cell Rep 2018 Jul 10;24(2):503-514
PMID:40015273 - A comprehensive Schizosaccharomyces pombe atlas of physical transcription factor interactions with proteins and chromatin.
Skribbe M et al. Mol Cell 2025 Feb 19;
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:11839823 - Formation of a carboxy-terminal domain phosphatase (Fcp1)/TFIIF/RNA polymerase II (pol II) complex in Schizosaccharomyces pombe involves direct interaction between Fcp1 and the Rpb4 subunit of pol II.
Kimura M et al. Mol Cell Biol 2002 Mar;22(5):1577-88
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:10648612 - The Rpb6 subunit of fission yeast RNA polymerase II is a contact target of the transcription elongation factor TFIIS.
Ishiguro A et al. Mol Cell Biol 2000 Feb;20(4):1263-70
PMID:28476936 - Genome-wide screen for cell growth regulators in fission yeast.
Weston L et al. J Cell Sci 2017 Jun 15;130(12):2049-2055
GO_REF:0000117 - Electronic Gene Ontology annotations created by ARBA machine learning models
PMID:10503538 - Isolation and characterization of temperature-sensitive mutations in the gene (rpb3) for subunit 3 of RNA polymerase II in the fission yeast Schizosaccharomyces pombe.
Mitobe J et al. Mol Gen Genet 1999 Aug;262(1):73-84
PMID:15620689 - Glyceraldehyde-3-phosphate dehydrogenase and actin associate with RNA polymerase II and interact with its Rpb7 subunit.
Mitsuzawa H et al. FEBS Lett 2005 Jan 03;579(1):48-52
PMID:42532406 - Evolutionarily Conserved Interactions of RNA Polymerases with TFIIH via a Common Acidic Tail of the RPB6 Subunit.
Okuda M et al. J Mol Biol 2026 Jul 30;:169965
PMID:8088549 - The fission yeast Schizosaccharomyces pombe rpb6 gene encodes the common phosphorylated subunit of RNA polymerase and complements a mutation in the corresponding gene of Saccharomyces cerevisiae.
Shpakovski GV Gene 1994 Sep 15;147(1):63-9
PMID:9322754 - Gene organization and protein sequence of the small subunits of Schizosaccharomyces pombe RNA polymerase II.
Sakurai H et al. Gene 1997 Sep 01;196(1-2):165-74
PMID:9325316 - RNA polymerase II subunits 2, 3, and 11 form a core subassembly with DNA binding activity.
Kimura M et al. J Biol Chem 1997 Oct 10;272(41):25851-5
PMID:9642054 - Two large subunits of the fission yeast RNA polymerase II provide platforms for the assembly of small subunits.
Ishiguro A et al. J Mol Biol 1998 Jun 19;279(4):703-12
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36
PMID:11918671 - Level of the RNA polymerase II in the fission yeast stays constant but phosphorylation of its carboxyl terminal domain varies depending on the phase and rate of cell growth.
Sakurai H et al. Genes Cells 2002 Mar;7(3):273-84