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Protein

DNA-directed RNA polymerase II subunit RPB3

Gene

rpb3

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-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. RPB3 is part of the core element with the central large cleft and the clamp element that moves to open and close the cleft (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription

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-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 RPB3
Short name:
RNA polymerase II subunit 3
Short name:
RNA polymerase II subunit B3
Alternative name(s):
DNA-directed RNA polymerase II 33 kDa polypeptide
Gene namesi
Name:rpb3
ORF Names:SPCC1442.10c
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
Proteomesi
  • UP000002485 Componenti: Chromosome III

Organism-specific databases

EuPathDBiFungiDB:SPCC1442.10c.
PomBaseiSPCC1442.10c. rpb3.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: PomBase
  • DNA-directed RNA polymerase II, core complex Source: PomBase
  • DNA-directed RNA polymerase II, holoenzyme Source: PomBase
  • nuclear chromatin Source: PomBase
  • nucleus Source: PomBase
Complete GO annotation...

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001327471 – 297DNA-directed RNA polymerase II subunit RPB3Add BLAST297

Proteomic databases

MaxQBiP37382.
PRIDEiP37382.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

BioGridi275397. 23 interactors.
IntActiP37382. 4 interactors.
MINTiMINT-1213878.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3H0GX-ray3.65C/O1-297[»]
ProteinModelPortaliP37382.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP37382.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000230844.
InParanoidiP37382.
KOiK03011.
OMAiFDYDAVP.
OrthoDBiEOG092C3EZ0.
PhylomeDBiP37382.

Family and domain databases

Gene3Di2.170.120.12. 1 hit.
InterProiIPR001514. DNA-dir_RNA_pol_30-40kDasu_CS.
IPR011262. DNA-dir_RNA_pol_insert.
IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3.
IPR009025. RBP11-like_dimer.
[Graphical view]
PfamiPF01000. RNA_pol_A_bac. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view]
SMARTiSM00662. RPOLD. 1 hit.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
PROSITEiPS00446. RNA_POL_D_30KD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P37382-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDSETHITIR NISKNSVDFV LTNTSLAVAN SLRRVVLAEI PTVAIDLVEI
60 70 80 90 100
NVNTSVMPDE FLAHRLGMIP LDSSNIDEPP PVGLEYTRNC DCDQYCPKCS
110 120 130 140 150
VELFLNAKCT GEGTMEIYAR DLVVSSNSSL GHPILADPKS RGPLICKLRK
160 170 180 190 200
EQEISLRCIA KKGIAKEHAK WSPTSAVAFE YDPWNKLQHT DYWFENDADA
210 220 230 240 250
EWPKSKNADW EEPPREGEPF NFQEEPRRFY MDVESVGSIP PNEIMVQGLR
260 270 280 290
ILQEKLAVLV RDLDEEQPTQ LSANELNMEE NAEMNWSPYQ NGEENTW
Length:297
Mass (Da):33,716
Last modified:February 21, 2001 - v2
Checksum:i94F639734B162DDF
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti7I → L in strain: Isolate TS99. 1
Natural varianti14 – 15KN → RD in strain: Isolate TS54. 2
Natural varianti24T → S in strain: Isolate TS54. 1
Natural varianti29A → P in strain: Isolate TS99. 1
Natural varianti67G → D in strain: Isolate TS54. 1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D15070 Genomic DNA. Translation: BAA22566.1.
CU329672 Genomic DNA. Translation: CAA21444.1.
D50661 Genomic DNA. Translation: BAA09315.1.
D50662 Genomic DNA. Translation: BAA09316.1.
PIRiS43201.
T40975.
RefSeqiNP_588324.1. NM_001023315.2.

Genome annotation databases

EnsemblFungiiSPCC1442.10c.1; SPCC1442.10c.1:pep; SPCC1442.10c.
GeneIDi2538816.
KEGGispo:SPCC1442.10c.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D15070 Genomic DNA. Translation: BAA22566.1.
CU329672 Genomic DNA. Translation: CAA21444.1.
D50661 Genomic DNA. Translation: BAA09315.1.
D50662 Genomic DNA. Translation: BAA09316.1.
PIRiS43201.
T40975.
RefSeqiNP_588324.1. NM_001023315.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3H0GX-ray3.65C/O1-297[»]
ProteinModelPortaliP37382.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi275397. 23 interactors.
IntActiP37382. 4 interactors.
MINTiMINT-1213878.

Proteomic databases

MaxQBiP37382.
PRIDEiP37382.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiSPCC1442.10c.1; SPCC1442.10c.1:pep; SPCC1442.10c.
GeneIDi2538816.
KEGGispo:SPCC1442.10c.

Organism-specific databases

EuPathDBiFungiDB:SPCC1442.10c.
PomBaseiSPCC1442.10c. rpb3.

Phylogenomic databases

HOGENOMiHOG000230844.
InParanoidiP37382.
KOiK03011.
OMAiFDYDAVP.
OrthoDBiEOG092C3EZ0.
PhylomeDBiP37382.

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-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.

Miscellaneous databases

EvolutionaryTraceiP37382.
PROiP37382.

Family and domain databases

Gene3Di2.170.120.12. 1 hit.
InterProiIPR001514. DNA-dir_RNA_pol_30-40kDasu_CS.
IPR011262. DNA-dir_RNA_pol_insert.
IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3.
IPR009025. RBP11-like_dimer.
[Graphical view]
PfamiPF01000. RNA_pol_A_bac. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view]
SMARTiSM00662. RPOLD. 1 hit.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
PROSITEiPS00446. RNA_POL_D_30KD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPB3_SCHPO
AccessioniPrimary (citable) accession number: P37382
Secondary accession number(s): P78959, P78960, Q9UUM9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: February 21, 2001
Last modified: October 5, 2016
This is version 137 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.