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Protein

DNA-directed RNA polymerase II subunit RPB9

Gene

rpb9

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

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. RPB9 is part of the upper jaw surrounding the central large cleft and thought to grab the incoming DNA template (By similarity). Involved in the regulation of transcription elongation.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi7Zinc 1By similarity1
Metal bindingi10Zinc 1By similarity1
Metal bindingi29Zinc 1By similarity1
Metal bindingi32Zinc 1By similarity1
Metal bindingi75Zinc 2By similarity1
Metal bindingi78Zinc 2By similarity1
Metal bindingi103Zinc 2By similarity1
Metal bindingi106Zinc 2By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri7 – 32C4-typeSequence analysisAdd BLAST26
Zinc fingeri71 – 111TFIIS-typePROSITE-ProRule annotationAdd BLAST41

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processTranscription
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-SPO-113418 Formation of the Early Elongation Complex
R-SPO-674695 RNA Polymerase II Pre-transcription Events
R-SPO-6781823 Formation of TC-NER Pre-Incision Complex
R-SPO-6782135 Dual incision in TC-NER
R-SPO-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-SPO-6796648 TP53 Regulates Transcription of DNA Repair Genes
R-SPO-72086 mRNA Capping
R-SPO-72165 mRNA Splicing - Minor Pathway
R-SPO-73776 RNA Polymerase II Promoter Escape
R-SPO-73779 RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-SPO-75953 RNA Polymerase II Transcription Initiation
R-SPO-76042 RNA Polymerase II Transcription Initiation And Promoter Clearance
R-SPO-77075 RNA Pol II CTD phosphorylation and interaction with CE

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase II subunit RPB9
Short name:
RNA polymerase II subunit B9
Alternative name(s):
DNA-directed RNA polymerase II 13.2 kDa polypeptide
DNA-directed RNA polymerase II subunit 9
Gene namesi
Name:rpb9
ORF Names:SPAPYUG7.04c
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
Proteomesi
  • UP000002485 Componenti: Chromosome I

Organism-specific databases

EuPathDBiFungiDB:SPAPYUG7.04c
PomBaseiSPAPYUG7.04c rpb9

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001214731 – 113DNA-directed RNA polymerase II subunit RPB9Add BLAST113

Proteomic databases

MaxQBiO74635
PaxDbiO74635
PRIDEiO74635

Interactioni

Subunit structurei

Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits.

Protein-protein interaction databases

BioGridi277972, 102 interactors
STRINGi4896.SPAPYUG7.04c.1

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3H0GX-ray3.65I/U1-113[»]
5U0Selectron microscopy7.80i1-113[»]
ProteinModelPortaliO74635
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO74635

Family & Domainsi

Sequence similaritiesi

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri7 – 32C4-typeSequence analysisAdd BLAST26
Zinc fingeri71 – 111TFIIS-typePROSITE-ProRule annotationAdd BLAST41

Keywords - Domaini

Zinc-finger

Phylogenomic databases

HOGENOMiHOG000228134
InParanoidiO74635
KOiK03017
OMAiETRMILF
OrthoDBiEOG092C59RA
PhylomeDBiO74635

Family and domain databases

CDDicd10508 Zn-ribbon_RPB9, 1 hit
InterProiView protein in InterPro
IPR019761 DNA-dir_RNA_pol-M_15_CS
IPR001529 DNA-dir_RNA_pol_M/15kDasu
IPR012164 Rpa12/Rpb9/Rpc10/TFS
IPR034012 Zn_ribbon_RPB9_C
IPR001222 Znf_TFIIS
PfamiView protein in Pfam
PF02150 RNA_POL_M_15KD, 1 hit
PF01096 TFIIS_C, 1 hit
PIRSFiPIRSF005586 RNApol_RpoM, 1 hit
SMARTiView protein in SMART
SM00661 RPOL9, 1 hit
SM00440 ZnF_C2C2, 1 hit
PROSITEiView protein in PROSITE
PS01030 RNA_POL_M_15KD, 1 hit
PS00466 ZF_TFIIS_1, 1 hit
PS51133 ZF_TFIIS_2, 1 hit

Sequencei

Sequence statusi: Complete.

O74635-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSNFQYCIEC NNMLYPREDK VDRVLRLACR NCDYSEIAAT SKVYRHELQS
60 70 80 90 100
SNVENTTVSH DASTDPTLPR SDKECPRCHQ HEAVFYQTHS RRGDTMMTLI
110
YVCVHCGFAF EEQ
Length:113
Mass (Da):13,175
Last modified:November 1, 1998 - v1
Checksum:i55A1ABAF5832671A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB007988 Genomic DNA Translation: BAA33021.1
AF237418 Genomic DNA Translation: AAL55660.1
CU329670 Genomic DNA Translation: CAB66313.1
PIRiT43279
RefSeqiNP_594705.1, NM_001020132.2

Genome annotation databases

EnsemblFungiiSPAPYUG7.04c.1; SPAPYUG7.04c.1:pep; SPAPYUG7.04c
GeneIDi2541470
KEGGispo:SPAPYUG7.04c

Similar proteinsi

Entry informationi

Entry nameiRPB9_SCHPO
AccessioniPrimary (citable) accession number: O74635
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 14, 2001
Last sequence update: November 1, 1998
Last modified: March 28, 2018
This is version 145 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome
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Main funding by: National Institutes of Health