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Protein

DNA-directed RNA polymerase II subunit RPB9

Gene

RpII15

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed-Annotation score: -Experimental evidence at transcript 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).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi21Zinc 1By similarity1
Metal bindingi24Zinc 1By similarity1
Metal bindingi43Zinc 1By similarity1
Metal bindingi46Zinc 1By similarity1
Metal bindingi90Zinc 2By similarity1
Metal bindingi93Zinc 2By similarity1
Metal bindingi118Zinc 2By similarity1
Metal bindingi123Zinc 2By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri21 – 46C4-typeSequence analysisAdd BLAST26
Zinc fingeri86 – 128TFIIS-typePROSITE-ProRule annotationAdd BLAST43

GO - Molecular functioni

  • DNA-directed 5'-3' RNA polymerase activity Source: FlyBase
  • nucleic acid binding Source: InterPro
  • zinc ion binding Source: InterPro

GO - Biological processi

Keywordsi

Biological processTranscription
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-DME-112382 Formation of RNA Pol II elongation complex
R-DME-113418 Formation of the Early Elongation Complex
R-DME-5578749 Transcriptional regulation by small RNAs
R-DME-674695 RNA Polymerase II Pre-transcription Events
R-DME-6781823 Formation of TC-NER Pre-Incision Complex
R-DME-6782135 Dual incision in TC-NER
R-DME-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-DME-6796648 TP53 Regulates Transcription of DNA Repair Genes
R-DME-6803529 FGFR2 alternative splicing
R-DME-6807505 RNA polymerase II transcribes snRNA genes
R-DME-72086 mRNA Capping
R-DME-72163 mRNA Splicing - Major Pathway
R-DME-72165 mRNA Splicing - Minor Pathway
R-DME-72203 Processing of Capped Intron-Containing Pre-mRNA
R-DME-73776 RNA Polymerase II Promoter Escape
R-DME-73779 RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-DME-75953 RNA Polymerase II Transcription Initiation
R-DME-75955 RNA Polymerase II Transcription Elongation
R-DME-76042 RNA Polymerase II Transcription Initiation And Promoter Clearance
R-DME-77075 RNA Pol II CTD phosphorylation and interaction with CE
R-DME-9018519 Estrogen-dependent gene expression

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 15.1 kDa polypeptide
Gene namesi
Name:RpII15
ORF Names:CG3284
OrganismiDrosophila melanogaster (Fruit fly)
Taxonomic identifieri7227 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraHolometabolaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
Proteomesi
  • UP000000803 Componenti: Chromosome 3R

Organism-specific databases

FlyBaseiFBgn0004855 RpII15

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome 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_00001214701 – 129DNA-directed RNA polymerase II subunit RPB9Add BLAST129

Proteomic databases

PaxDbiP36958
PRIDEiP36958

Expressioni

Developmental stagei

Expressed both maternally and zygotically throughout development.1 Publication

Gene expression databases

BgeeiFBgn0004855
ExpressionAtlasiP36958 baseline and differential
GenevisibleiP36958 DM

Interactioni

Subunit structurei

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

Protein-protein interaction databases

IntActiP36958, 3 interactors
STRINGi7227.FBpp0082384

Structurei

3D structure databases

ProteinModelPortaliP36958
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri21 – 46C4-typeSequence analysisAdd BLAST26
Zinc fingeri86 – 128TFIIS-typePROSITE-ProRule annotationAdd BLAST43

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG2691 Eukaryota
COG1594 LUCA
GeneTreeiENSGT00550000075063
InParanoidiP36958
KOiK03017
OMAiETRMILF
OrthoDBiEOG091G0W1S
PhylomeDBiP36958

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.

P36958-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTTAFDAAHT EGPGFVGIRF CQECNNMLYP KEDKENKILL YACRNCDYKQ
60 70 80 90 100
EADSNCIYVN KIMHEIDELT HIVPDVISDP TLPRTEDHAC PKCSHREAVF
110 120
FQAQTRRAEE EMRLYYVCTN QNCTHRWTE
Length:129
Mass (Da):15,098
Last modified:November 8, 2005 - v2
Checksum:iB96CAB2022752DB3
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti51 – 53EAD → KTN in AAB21674 (PubMed:1545824).Curated3
Sequence conflicti100F → S in AAB29028 (PubMed:8243669).Curated1
Sequence conflicti102Q → K in AAB21674 (PubMed:1545824).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S88139 Genomic DNA Translation: AAB21674.1
S66940 Genomic DNA Translation: AAB29028.2
AE014297 Genomic DNA Translation: AAF55045.1
PIRiS39445
RefSeqiNP_001247099.1, NM_001260170.2
NP_001287326.1, NM_001300397.1
NP_731898.1, NM_169575.3

Genome annotation databases

EnsemblMetazoaiFBtr0082925; FBpp0082384; FBgn0004855
FBtr0309995; FBpp0301701; FBgn0004855
FBtr0346348; FBpp0312065; FBgn0004855
GeneIDi41741
KEGGidme:Dmel_CG3284

Similar proteinsi

Entry informationi

Entry nameiRPB9_DROME
AccessioniPrimary (citable) accession number: P36958
Secondary accession number(s): Q9VFK8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: November 8, 2005
Last modified: May 23, 2018
This is version 153 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programDrosophila annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Drosophila
    Drosophila: entries, gene names and cross-references to FlyBase
  2. SIMILARITY comments
    Index of protein domains and families

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