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Protein

DNA-directed RNA polymerase II subunit rpb4

Gene

rpb4

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. RPB4 is part of a subcomplex with RPB7 that binds to a pocket formed by RPB1, RPB2 and RPB6 at the base of the clamp element. The RBP4-RPB7 subcomplex seems to lock the clamp via RPB7 in the closed conformation thus preventing double-stranded DNA to enter the active site cleft. The RPB4-RPB7 subcomplex binds single-stranded DNA and RNA (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processTranscription

Enzyme and pathway databases

ReactomeiR-SPO-113418 Formation of the Early Elongation Complex
R-SPO-5578749 Transcriptional regulation by small RNAs
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
R-SPO-9018519 Estrogen-dependent gene expression

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase II subunit rpb4
Short name:
RNA polymerase II subunit B4
Gene namesi
Name:rpb4
ORF Names:SPBC337.14
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
Proteomesi
  • UP000002485 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:SPBC337.14
PomBaseiSPBC337.14 rpb4

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_00000739831 – 135DNA-directed RNA polymerase II subunit rpb4Add BLAST135

Proteomic databases

MaxQBiO74825
PaxDbiO74825
PRIDEiO74825

Interactioni

Subunit structurei

Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits. RPB4 and RPB7 form a Pol II subcomplex (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
med8O946463EBI-697320,EBI-1533413

GO - Molecular functioni

Protein-protein interaction databases

BioGridi277526, 12 interactors
IntActiO74825, 3 interactors
MINTiO74825
STRINGi4896.SPBC337.14.1

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3H0GX-ray3.65D/P1-135[»]
5U0Selectron microscopy7.80d1-135[»]
ProteinModelPortaliO74825
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO74825

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000195281
InParanoidiO74825
KOiK03012
OMAiQTMRKFQ
OrthoDBiEOG092C5NLC
PhylomeDBiO74825

Family and domain databases

Gene3Di1.20.1250.40, 1 hit
InterProiView protein in InterPro
IPR010997 HRDC-like_sf
IPR006590 RNA_pol_Rpb4/RPC9_core
IPR005574 RPB4/RPC9
IPR038324 Rpb4/RPC9_sf
PfamiView protein in Pfam
PF03874 RNA_pol_Rpb4, 1 hit
SMARTiView protein in SMART
SM00657 RPOL4c, 1 hit
SUPFAMiSSF47819 SSF47819, 1 hit

Sequencei

Sequence statusi: Complete.

O74825-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPRAIFEEDA AQLKLGPEFE NEDMLTVSEA KILIETVLAQ RARETNGEIP
60 70 80 90 100
MTDVMKKTVA YFNVFARFKT AEATYACERI LGNRFHKFER AQLGTLCCED
110 120 130
AEEARTLIPS LANKIDDQNL QGILDELSTL RKFQD
Length:135
Mass (Da):15,362
Last modified:November 1, 1998 - v1
Checksum:i61C98593A01C1E04
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB019575 Genomic DNA Translation: BAA85621.1
AF149308 mRNA Translation: AAF62856.1
CU329671 Genomic DNA Translation: CAA21284.1
PIRiT40267
RefSeqiNP_595415.1, NM_001021322.2

Genome annotation databases

EnsemblFungiiSPBC337.14.1; SPBC337.14.1:pep; SPBC337.14
GeneIDi2541011
KEGGispo:SPBC337.14

Similar proteinsi

Entry informationi

Entry nameiRPB4_SCHPO
AccessioniPrimary (citable) accession number: O74825
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: November 1, 1998
Last modified: May 23, 2018
This is version 134 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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